SL-0476	A band (The appearance of the striated muscle is created by a pattern of alternating dark A bands and light I bands. A bands comprise thick filaments of myosin and proteins that bind myosin. They are bisected by the H zone, a paler region where the thick and the thin filaments do not overlap. The exact center of the A band is termed the M line.)
SL-0002	Acidocalcisome (The acidocalcisome is an electron-dense acidic organelle which contains a matrix of pyrophosphate and polyphosphates with bound calcium and other cations. Its limiting membrane possesses a number of pumps and exchangers for the uptake and release of these elements. The acidocalcisome does not belong to the endocytic pathway and may represent a branch of the secretory pathway in trypanosomatids and apicomplexan parasites. The acidocalcisome is possibly involved in polyphosphate and cation storage and in adaptation of these microoganisms to environmental stress.)
SL-0316	Acidocalcisome lumen (The acidocalcisome compartment bounded by the acidocalcisomal membrane.)
SL-0003	Acidocalcisome membrane (The membrane of an acidocalcisome.)
SL-0007	acrosome (The acrosome is a large lysosome-like vesicle overlying the sperm nucleus. This spermatid specific organelle, derived from the Golgi during spermatogenesis, contains both unique acrosomal enzymes and common enzymes associated with lysosomes in somatic cells. Only sperm that have undergone the acrosome reaction can fuse with egg plasma membrane. The acrosome reaction is characterized by multiple fusions of the outer acrosomal membrane with the sperm cell membrane.)
SL-0004	acrosome inner membrane (The portion of the acrosomal membrane closely associated with the anterior region of the nuclear envelope.)
SL-0005	acrosome lumen (The lumen of the acrosome.)
SL-0006	acrosome membrane (The membrane of the acrosome.)
SL-0447	acrosome outer membrane (The portion of the acrosomal membrane just beneath the sperm cell membrane.)
SL-0008	actin patch (The actin patch is a highly dynamic actin structure in fungi required primarily for endocytosis but possibly also coupled to exocytosis. Actin patches are highly motile, they first assemble at sites of polarized cell growth and then move slowly and nondirectionally along the cell cortex.)
SL-0009	adherens junction (The adherens junction is an adhesion complex that localizes close to the apical membrane in epithelial cells. These junctions join the actin cytoskeleton to the plasma membrane to form adhesive contacts between cells or between cells and extracellular matrix. AJs mediate both cell adhesion and signaling.)
SL-0010	aleurone grain (The aleurone grain (protein body), is a specialized dry vacuole where storage proteins accumulate in a stable form in seeds, usually in the endosperm. Cells containing aleurones form the aleurone layer. These act as a source of amino acids for various synthetic activities during germination, but also represent immensely important nutritional sources for humans and ruminants. In most seeds, the aleuron grains contain three morphologically distinct regions: the matrix, crystalloid, and globoid.)
SL-0317	aleurone grain lumen (The aleurone grain compartment bounded by the aleurone grain membrane.)
SL-0011	aleurone grain membrane (The membrane of an aleurone grain.)
SL-0012	amyloplast (The amyloplast is a colorless plant plastid that forms and stores starch. Amyloplasts are found in many tissues, particularly in storage tissues. They are found in both photosynthetic and parasitic plants, i.e. even in plants that are not capable of photosynthesis. Many amyloplast proteins are also expressed in photosynthetic tissue.)
SL-0013	amyloplast inner membrane (The inner membrane of an amyloplast.)
SL-0014	amyloplast membrane (The membrane surrounding the amyloplast. Also used when it is not clear in which amyloplast membrane a protein is found.)
SL-0491	Anammoxosome (The anammoxosome is a large intracytoplasmic compartment bounded by a single bilayer, ladderane-lipid-containing membrane present in bacteria that perform anaerobic ammonium oxidation (anammox). This organelle is the site of the anammox process, in which nitrite is used as the electron acceptor in the conversion of ammonium to dinitrogen (N2) gas and water. Anammox bacteria belong to the phylum Planctomycetes and are recognized as major players in the global nitrogen cycle.)
SL-0492	Anammoxosome membrane (The membrane of the anammoxosome, a single bilayer membrane that contains unusual lipids, i.e. the so-called ladderane lipids, which appear to be unique for anammox bacteria.)
SL-0015	Apical cell membrane (The fraction of the cell membrane at the apical end of the cell, which faces the outside world or the lumen of the cavity.)
SL-0016	apical lamina (In the sea urchin embryos the apical lamina is a fibrous meshwork that remains after removal of hyalin from the hyalin layer.)
SL-0017	Apicolateral cell membrane (The fraction of the cell membrane at the apical end of the lateral plasma membrane of the cell.)
SL-0018	apicoplast (The apicoplast is a plastid found in some apicocomplexan parasites which is a non-photosynthetic plastid relict. Apicoplasts do not contain thylakoids; it is not yet clear if they contain internal membranes.)
SL-0019	apoplast (The apoplast is the "non-living" extracellular space that surrounds the symplast. It consists of cell walls and spaces between cells. Water and solutes can move freely in this framework, except at the endodermis in roots and stems where the apoplastic flow of ions is interrupted by the Casparian strip, forcing water to flow to symplast.)
SL-0306	Archaeal flagellum (The flagellum of Archaea is a long hair-like cell surface appendage made of polymerized flagellin with an attached hook. This rotating structure with switches propels the cell through a liquid medium. The archaeal flagellum is distinct from its bacterial equivalent in terms of architecture, composition and mechanism of assembly. Thinner (10-15 nm) compared to the bacterial flagellum (18-24 nm), it is usually composed of several types of flagellins and is glycosylated. The archeal flagellum is considered as a type IV pilus-like structure.)
SL-0538	Ascus epiplasm (Ascus cytoplasm that is not packaged into ascospores.)
SL-0020	attachment organelle (The attachment organelle is a multifunctional polar structure found in several Mycoplasma species. This large and complex cell extension, whose predicted mass is greater than that of a vertebrate nuclear pore complex, is essential for adherence to host cells, is involved in gliding motility, and is associated with cell division.)
SL-0021	attachment organelle membrane (The membrane surrounding the attachment organelle.)
SL-0535	Autolysosome (The autolysosome is a single-membrane organelle resulting from the fusion of a double-membrane autophagosome with a lysosome during macroautophagy. The outer membrane of the autophagosome fuses with the lysosome membrane whereas the inner membrane and the autophagic cargo are released into the lumen and degraded. Alternatively, the convergence of macroautophagy and endocytosis produces a single-membrane amphisome that also results in an autolysosome upon fusion with a lysosome.)
SL-0537	Autolysosome lumen (The autolysosome lumen is the area enclosed by the autolysosomal membrane.)
SL-0536	Autolysosome membrane (The membrane surrounding the autolysosome.)
SL-0023	autophagosome (The autophagosome is a double membrane vesicle involved in the degradation of long-lived proteins, unnecessary or damaged organelles as well as other cellular constituents such as lipids or carbohydrates. Crescent-shape isolation membranes or phagophores can sequester cytoplasm and organelles giving rise to autophagosomes. The outer membrane of the autophagosomes then fuse with vacuoles and/or lysosomes and the inner membrane vesicles (termed autophagic bodies) are released into the vacuole/lysosome lumen. These vesicles are then lysed and the contents are degraded by resident hydrolases.)
SL-0318	autophagosome lumen (The autophagosomal compartment bounded by the autophagosomal membrane.)
SL-0022	autophagosome membrane (The membrane surrounding the autophagosome.)
SL-0279	axon (The axon is the long process of a neuron that conducts nerve impulses, usually away from the cell body to the terminals and varicosities, which are sites of storage and release of neurotransmitter.)
SL-0489	bacterial extracellular vesicle (Small membrane vesicle (< 1 um) that buds off a prokaryotic cell's plasma membrane, able to carry proteins, phospholipids, lipopolysaccharides, nucleic acids, viruses, etc. Bacterial extracellular vesicles are important in intercellular communication and pathogenesis, and can exist within host cells.)
SL-0307	Bacterial flagellum (The flagellum of Bacteria is a long hair-like cell surface appendage. The flagellar apparatus consists of the flagellar filament made of polymerized flagellin (the propeller), the hook-like structure near the cell surface (the universal joint) and the basal body (the engine) which is a rod and a system of rings embedded in the cell envelope. The basal body and the hook anchor the whip-like filament to the cell surface. The flagellum is a rotating structure whose switches propels the cell through a liquid medium.)
SL-0142	Bacterial flagellum basal body (The basal body of a bacterial flagellum is a rod and a system of rings embedded in the cell envelope. Gram-negative flagella usually have an L ring in the plane of the lipopolysaccharide in the outer membrane, a periplasmic P ring in the plane of the peptidoglycan around the flagellar rod and a MS ring that is located within and above the cytoplasmic membrane. A C ring extends into the cytoplasm. The rod is a major component of the flagellar basal body and it spans the bacterial periplasm. The L and P rings are not found in Gram-positive bacteria.)
SL-0358	Bacterial flagellum filament (The bacterial flagellar filament is made of polymerized flagellin.)
SL-0357	Bacterial flagellum hook (The hook of a bacterial flagellum connects the basal body and the filament and acts as a universal joint. This flexible hinge relays the energy generated by the motor into torque formation that is transferred onto the rigid filament.)
SL-0544	Bacterial microcompartment (Bacterial microcompartments (BMC) are proteinaceous polyhedral shells that encapsulate enzymes. The selectively permeable organelles protect their contents from the cytoplasm and/or the cytoplasm from reactants in their interior. The best characterized BMC is the carboxysome, which encapsulates RuBisCO and carbonic anhydrase, and enhances autotrophic CO(2) fixation. Other characterized BMCs encapsulate enzymes involved in ethanolamine or propanediol degradation; both pathways make toxic intermediates. Artifical BMCs can be expressed and filled with cargo proteins for biotechnological uses. BMCs are found in many bacterial phyla; in most cases their cargo is unknown.)
SL-0454	Barrier septum (The barrier septum, is a septum which spans a cell and does not allow exchange of organelles or cytoplasm between compartments.)
SL-0024	Basal cell membrane (The basal cell membrane is the fraction of the plasma membrane at the basal side of the cell, which faces the underlying connective tissue.)
SL-0025	basement membrane (The basement membrane is a highly specialized extracellular matrix structure undelying the basal surface of cells exhibiting polarity (epithelial, endothelial and mesothelial cells) and surrounding certain cell types such as muscle, adipose and Schwann cells.)
SL-0026	Basolateral cell membrane (The basolateral cell membrane is the fraction of the plasma membrane at the basolateral side of the cell, which faces adjacent cells and the underlying connective tissue.)
SL-0472	bleb (These cellular membrane protrusions are the result of actomyosin contractions of the cortex, which cause either transient detachment of the cell membrane from the actin cortex or a rupture in the actin cortex. Then, cytosol streams out of the cell body and inflates the newly formed bleb. Once expansion slows, an actin cortex is reconstituted. Retraction is powered by myosin motor proteins. Blebbing is a common feature of cell physiology during cell movement, cytokinesis, cell spreading and apoptosis.)
SL-0027	Bud (A growing bud is an asexual reproductive structure, as in yeast or a hydra, that consists of an outgrowth capable of developing into a new individual.)
SL-0028	Bud membrane (The membrane surrounding a bud.)
SL-0029	Bud neck (The bud neck is a constriction between the mother and the daughter cell (bud) in an organism that reproduces by budding. This structure comprises the septin ring, an hourglass-shaped collar around the mother-bud neck, which splits into two rings flanking the division plane at cytokinesis and that acts as a diffusion barrier to maintain polarity factors in the bud and as a scaffold to recruit actomyosin contractile ring components.)
SL-0030	Bud tip (The bud tip is the distal tip of the bud opposite to the site of attachment to the mother cell.)
SL-0031	Cajal body (The nuclear Cajal bodies (CBs) are small subnuclear membraneless organelles present either free in the nucleoplasm and/or physically associated to specific regions of chromatin. CBs contain newly assembled small nuclear ribonucleoproteins (snRNPs) and small nucleolar ribonucleoproteins (snoRNPs) particles, which are involved in pre-mRNA splicing and in ribosomal RNA processing, respectively. Mammalian nucleus in interphase, show 2-6 CBs, as irregular, punctuate structures, which vary in size and shape and which are often juxtaposed to nucleoli. At the electronic-microscope level, they are composed of heterogeneous mixture of electro-dense particles with diameters ranging from 20-25 nm and are called coiled body. Structures similar to CBs have been identified in the amphibian oocyte nucleus (called sphere organelles) and in insect (called endobodies). CBs are motile and dynamic structures. Both their protein and RNA-protein components can cycle continuously between CBs and other nuclear locations depending on the transcriptional state of the cell.)
SL-0032	calyx (The calyx is a large cytoskeletal component of the perinuclear theca of the mammalian sperm head.)
SL-0033	capsule (The capsule is a protective structure surrounding some bacteria or fungi. The bacterial capsule is a layer of material, usually polysaccharide, attached to the cell wall possibly via covalent attachments to either phospholipid or lipid-A molecules. It has several functions: promote bacterial adhesion to surfaces or interaction with other organisms; act as a permeability barrier, as a defense mechanism against phagocytosis and/or as a nutrient reserve. Among pathogens, capsule formation often correlates with pathogenicity. The fungal capsule is an extracellular layer which lies outside the cell wall and it is usually composed of polysaccharides. It protects the cell from different environmental dangers such as phagocytosis, dessication, etc.)
SL-0034	Carboxysome (Carboxysomes are bacterial microcompartments in which ribulose bisphosphate carboxylase (RuBisCO)-mediated CO(2) fixation occurs. The cytoplasmic polyhedral inclusion bodies are surrounded by a thin protein coat. They enhance autotrophic CO(2) fixation in air by increasing the CO(2) concentration around RuBisCO, thus reducing its reaction with O(2), a competing substrate. They contain carbonic anhydrase as part of the CO(2) concentration mechanism.)
SL-0035	caveola (The caveola is a small (apparently) uncoated pit mostly found in the cell membrane of many highly differentiated mammalian cells, such as adipocytes, endothelial cells and muscle cells. These flask-shaped invaginations are defined by the presence of caveolins and contains a subset of lipid-raft components, including cholesterol and sphingolipids. Caveolae each comprise a caveolar bulb with a diameter of 60-80 nm, connected to an opening of fairly constant diameter. Caveolae might exists as single pits or can form a cluster of caveolae with non-caveolar membrane between the pits. In many tissues, and particularly in adipocytes, multiple caveolae are arranged around a central vacuolar domain. In developing muscle fibres, multiple caveolae are connected by a single neck to the cell membrane, producing large chains of interconnected caveolae. Another structural feature of caveolae in certain endothelia is the presence of a stomatal diaphragm, which consists of a central density and radial spikes, in the neck of the caveolae. Mature caveolae might be assembled in the Golgi apparatus. Caveolae can flatten out into the cell membrane, thereby loosing their caveolar identity.)
SL-0138	cell cortex (The cell cortex is the cytoplasmic region under the cell membrane.)
SL-0036	Cell envelope (The cell envelope comprises the cell membrane, the cell wall and an outer membrane if present. In bacteria with 1 membrane (Gram-positive) the cell envelope consists of the cytoplasmic membrane, cell wall and capsule. In bacteria with 2 membranes (Gram-negative) the envelope consists of the cytoplasmic membrane, cell wall, periplasmic space, outer membrane and capsule. The archaeal cell envelope generally consists of single membrane covered by a surface layer (S-layer). Ignicoccus species exceptionally have an outer membrane which encloses a large periplasmic space. Extreme thermophiles and acidophiles have tetraether type glycerophospholipids with C40 isoprenoid chains. The yeast cell envelope is a protecting capsule which consists of the cytoplasmic membrane, the periplasmic space, and the cell wall.)
SL-0037	Cell inner membrane (The prokaryotic inner cell membrane is the selectively permeable membrane which separates the cytoplasm from the periplasm in prokaryotes with 2 membranes.)
SL-0038	Cell junction (The cell junction is a cell-cell or cell-extracellular matrix contact within a tissue of a multicellular organism, especially abundant in epithelia. In vertebrates, there are three major types of cell junctions: anchoring junctions (e.g. adherens junctions), communicating junctions (e.g. gap junctions) and occluding junctions (e.g. tight junctions).)
SL-0039	Cell membrane (The cell membrane is the selectively permeable membrane which separates the cytoplasm from its surroundings. Known as the cell inner membrane in prokaryotes with 2 membranes.)
SL-0040	Cell outer membrane (The prokaryotic outer cell membrane is the selectively permeable membrane which separates the prokaryotic periplasm from its cell surroundings. Traditionally only Gram-negative bacteria were thought of as having an outer membrane, but recent work has shown some Actinobacteria, including Mycobacterium tuberculosis, as well as at least 1 archaea (Ignicoccus hospitalis) have a cell outer membrane.)
SL-0280	Cell projection (A cell projection is a cell protrusion such as pseudopodium, filopodium, lamellipodium, growth cone, flagellum, acrosome, axon, or bacterial comet tail. These membrane-cytoskeleton-coupled processes are involved in many biological functions, such as cell motility, cancer-cell invasion, endocytosis, phagocytosis, exocytosis, pathogen infection, neurite extension and cytokinesis.)
SL-0455	Cell septum (A structure composed of peptidoglycan and often chitin in addition to other materials. It usually forms perpendicular to the long axis of a cell or hypha and grows centripetally from the cell wall to the center of the cell and often functions in the compartmentalization of a cell into two daughter cells.)
SL-0310	Cell surface (The outermost side of the cell.)
SL-0456	Cell tip (The region at either end of the longest axis of a cylindrical or elongated cell, where polarized growth may occur.)
SL-0041	cell wall (The complex and rigid layer surrounding the cell. Cell walls are found in bacteria, archaea, fungi, plants, and algae. The cell wall envelopes the inner or plasma membrane in all bacteria and is surrounded by the outer membrane in bacteria with 2 membranes (Gram-negative). Bacterial cell walls contain peptidoglycan while those of archaea are not made of peptidoglycan, but some archaea may contain pseudopeptidoglycan, which is composed of N-acetyltalosaminuronic acid, instead of N-acetyl muramic acid in peptidoglycan. The plant cell wall is made of fibrils of cellulose embedded in a matrix of several other kinds of polymers such as pectin and lignin. Algal cell walls are usually composed of cellulose, glycoproteins, sporopollenin, calcium and various polysaccharides such as manosyl, xylanes, alginic acid. Diatom cell walls (or frustules) contain silica. The cell wall plays a role in cell shape, cell stability and development, and protection against environmental dangers.)
SL-0042	Cellular chromatophore membrane (The cellular chromatophore membrane is the plasma-membrane derived internal, photosynthetic membrane found in the cytoplasm in purple photosynthetic bacteria. They contain the reaction centers, antennae complexes, cytochrome bc1 complex and the F(0)F(1)-ATPase.)
SL-0043	Cellular thylakoid (A bacterial thylakoid membrane usually formed by extensive invaginations of the cell inner (plasma) membrane. In cyanobacteria thylakoids house the photosynthetic machinery and pigments. In Synechocystis sp. strain PCC 6803 the thylakoid membranes are physically discontinuous from the plasma membrane, and thus represent bona fide intracellular organelles.)
SL-0044	Cellular thylakoid lumen (The lumen of the cellular thylakoid.)
SL-0045	Cellular thylakoid membrane (The membrane of the cellular thylakoid.)
SL-0485	centriolar satellite (Centriolar satellites are nonmembranous, electron-dense and spherical cytoplasmic granules of about 70-100 nm in diameter, occurring around centrosomes in most vertebrate cell types. They contain a number of centrosomal proteins. Centriolar satellites have the ability to move along microtubules, toward their minus ends, i.e. toward centrosomes. Their number increase during interphase and decrease during mitosis.)
SL-0046	centriole (The centriole is a barrel-shaped microtubule-based structure. A pair of centrioles, embedded in the so-called pericentriolar material, constitute the centrosome, a microtubule organizing center of an eukaryotic cell. Centrioles are barrel-shaped microtubule-based structures organized in a 9-fold radial symmetry. Centriolar microtubule arrays usually consist of triplet microtubules, although doublets or singlets are present in some species. Centrioles are structurally related to (and often interconvertible with) basal bodies, the organelles required for the assembly of a cilium or flagellum.)
SL-0047	centromere (The centromere is a region of replicated eukaryotic chromosomes where the two chromatids are joined together.)
SL-0048	centrosome (The centrosome is a microtubule organizing center (MTOC) responsible for the nucleation and organisation of  microtubules. It is composed of two orthogonally arranged centrioles, each one having a barrel shaped microtubule structure, and their surrounding pericentriolar material (PCM).)
SL-0049	chloroplast (The most common form of plastid, the chloroplast is a photosynthetic organelle found in all photosynthetic eukaryotes except glaucocystophyte algae (where it is called a cyanelle) and Paulinella species (where it is called an organellar chromatophore). In green (photosynthetic) tissue they house the machinery necessary for pigment biosynthesis, amino acid synthesis, lipid metabolism etc, as well as the machinery for photosynthesis and CO(2) fixation. They are surrounded by between 2 and 4 membranes and contain thylakoids in green tissue.)
SL-0050	chloroplast envelope (The envelope of a chloroplast comprises the inner and outer chloroplast membrane including the intermembrane space.)
SL-0051	chloroplast inner membrane (The inner membrane of a chloroplast is the membrane which separates the chloroplast stroma from the intermembrane space.)
SL-0052	chloroplast intermembrane space (The intermembrane space between the inner and the outer chloroplast membranes.)
SL-0053	chloroplast membrane (The membrane surrounding a chloroplast. Also used when it is not clear in which chloroplast membrane (outer membrane, inner membrane or thylakoid) a protein is found.)
SL-0139	chloroplast nucleoid (The chloroplast nucleoid is the chloroplastic pseudocompartment formed by the chromatin-dense area. This region, which is functionally equivalent to the eukaryotic nucleus, is not surrounded by a membrane.)
SL-0054	chloroplast outer membrane (The outer membrane of a chloroplast is the chloroplast membrane facing the cytoplasm.)
SL-0055	chloroplast stroma (The internal space enclosed by the chloroplast double membrane but excluding the thylakoid space. This space, filled with a colorless hydrophilic matrix, contains DNA, ribosomes and some temporary products of photosynthesis.)
SL-0056	chloroplast thylakoid (The thylakoid of a chloroplast is an internal system of interconnected membranes, that carry out the light reactions of photosynthesis. They are arranged into stacked and unstacked regions called grana and stroma thylakoids, respectively, that are differentially enriched in photosystem I and II complexes. Although extensive, the thylakoid network in an individual chloroplast is thought to comprise a single lumenal compartment.)
SL-0057	chloroplast thylakoid lumen (The chloroplast thylakoid lumen is the chloroplast compartment bounded by the thylakoid membranes.)
SL-0058	chloroplast thylakoid membrane (The thylakoid membranes of a chloroplast is an internal system of interconnected membranes, that carry out the light reactions of photosynthesis. They are arranged into stacked and unstacked regions called grana and stroma thylakoids, respectively, that are differentially enriched in photosystem I and II complexes. Although extensive, the thylakoid network in an individual chloroplast is thought to comprise a single lumenal compartment.)
SL-0059	Chlorosome (The chlorosome is a photosynthetic light-harvesting complex found in anoxygenic green bacteria. Chlorosomes are flattened ellipsoidal organelles appressed to the cytoplasmic face of the cell membrane. They typically contain highly aggregated bacteriochlorophyll c, d, or e (Bchl), a small amount of Bchl a, carotenoids, quinones, and occasionally wax esters. The chlorosome envelope of green sulfur bacteria is an asymmetric membrane containing galactolipids with the galactosyl moieties exposed on the outer surface. The farnesyl tails of the BChl molecules within the chlorosome probably comprise the inner leaflet of this membrane.)
SL-0060	chlorosome envelope (The chlorosome envelope of green sulfur bacteria is an asymmetric membrane containing galactolipids with the galactosyl moieties exposed on the outer surface. The farnesyl tails of the BChl c molecules within the chlorosome probably comprise the inner leaflet of this membrane.)
SL-0061	chromaffin granule (A chromaffin granule is a specialized secretory vesicle characteristic of chromaffin cells.)
SL-0349	chromaffin granule lumen (The chromaffin granule comparment bounded by the chromaffin granule membrane.)
SL-0062	chromaffin granule membrane (The chromaffin granule membrane is the membrane surrounding a chromaffin granule, a specialized secretory vesicle characteristic of chromaffin cells.)
SL-0063	chromoplast (A chromoplast is a plastid containing pigments other than chlorophyll. Found in flower, petals and fruit.)
SL-0064	chromoplast membrane (The membrane surrounding the chromoplast. Also used when it is not clear in which chromoplast membrane (outer membrane, inner membrane or thylakoid) a protein is found.)
SL-0065	chromoplast stroma (The chromoplast stroma is the space enclosed by the chromoplast double membrane but excluding the photosynthetic material. The chromoplast is a plastid containing pigments other than chlorophyll.)
SL-0468	Chromosome (An organized structure composed of a single very long molecule of coiled DNA and associated proteins (e.g. histones) that carries hereditary information.)
SL-0066	cilium (The cilium is a cell surface projection found at the surface of a large proportion of eukaryotic cells. The two basic types of cilia, motile (alternatively named flagella) and non-motile, collectively perform a wide variety of functions broadly encompassing cell/fluid movement and sensory perception. Their most prominent structural component is the axoneme which consists of nine doublet microtubules, with all motile cilia - except those at the embryonic node - containing an additional central pair of microtubules. The axonemal microtubules of all cilia nucleate and extend from a basal body, a centriolar structure most often composed of a radial array of nine triplet microtubules. In most cells, basal bodies associate with cell membranes and cilia are assembled as 'extracellular' membrane-enclosed compartments.)
SL-0304	cilium axoneme (The cilium axoneme is the most prominent structural component of the cilium. It consists of nine doublet microtubules, with all motile cilia - except those at the embryonic node - containing an additional central pair of microtubules. The axonemal microtubules of all cilia nucleate and extend from a basal body, a centriolar structure most often composed of a radial array of nine triplet microtubules. In most cells, basal bodies associate with cell membranes and cilia are assembled as 'extracellular' membrane-enclosed compartments.)
SL-0087	cilium basal body (The basal body is a barrel-shaped microtubule-based structure required for the formation of cilia. Basal bodies, structuraly related to and often interconvertible with centrioles, serves as a nucleation site for axoneme growth.)
SL-0305	cilium membrane (The portion of the cell membrane surrounding the cilium.)
SL-0067	cis-Golgi network (The cis-Golgi network is an extensive tubulovesicular network bound to the cis face of the Golgi stack and which function is to receive process the biosynthetic output from the ER.)
SL-0068	cis-Golgi network membrane (The lipid bilayer surrounding any of the compartments that make up the cis-Golgi network.)
SL-0069	clathrin-coated pit (Coated pits are regions of the cell membrane specialized in receptor-mediated endocytosis. Their cytoplasmic surface is coated with a bristlelike structure made of clathrin. During the first steps of endocytosis, clathrin-coated pits are internalized to form clathrin-coated vesicles which transport proteins from organelle to organelle.)
SL-0070	clathrin-coated vesicle (Clathrin coated vesicles (CCVs) mediate the vesicular transport of cargo such as proteins between organelles in the post-Golgi network connecting the trans-Golgi network, endosomes, lysosomes and the cell membrane. CCVs that bud from the cell membrane reveal a striking polyhedral pattern reminiscent of a fullerene which arises from the outermost protein in the coat, clathrin. Clathrin assembles from three-legged individual components called triskelions to form a polygonal lattice around the vesicle. Clathrin is a large heterohexameric protein complex composed of three heavy chains and three light chains. Clathrin molecules self-assemble together to make a spherical clathrin lattice structure, a polyhedron made of regular pentagons and hexagons. The clathrin lattice serves as a mechanical scaffold but is itself unable to bind directly to membrane components. The connection of the clathrin scaffold to the membrane is mediated by clathrin adaptors, which can bind directly to both the clathrin lattice and to the lipid and protein components of membranes. Clathrin-associated adaptor protein (AP) complexes are a stoichiometric coat component of CCVs alongside clathrin itself, and are considered a major clathrin adaptor contributing the CCV formation.)
SL-0319	clathrin-coated vesicle lumen (The clathrin-coated vesicle compartment bounded by the clathrin-coated vesicle membrane.)
SL-0071	clathrin-coated vesicle membrane (The membrane surrounding a clathrin-coated vesicle (CCV). CCVs mediate the vesicular transport of cargo such as proteins between organelles in the post-Golgi network connecting the trans-Golgi network, endosomes, lysosomes and the cell membrane. CCVs that bud from the cell membrane reveal a striking polyhedral pattern reminiscent of a fullerene which arises from the outermost protein in the coat, clathrin. Clathrin assembles from three-legged individual components called triskelions to form a polygonal lattice around the vesicle. Clathrin is a large heterohexameric protein complex composed of three heavy chains and three light chains. Clathrin molecules self-assemble together to make a spherical clathrin lattice structure, a polyhedron made of regular pentagons and hexagons. The clathrin lattice serves as a mechanical scaffold but is itself unable to bind directly to membrane components. The connection of the clathrin scaffold to the membrane is mediated by clathrin adaptors, which can bind directly to both the clathrin lattice and to the lipid and protein components of membranes. Clathrin-associated adaptor protein (AP) complexes are a stoichiometric coat component of CCVs alongside clathrin itself, and are considered a major clathrin adaptor contributing the CCV formation.)
SL-0467	Cleavage furrow (In fungal, amoeboid and animal cells, during the cytokinesis at the end of cell division, a cleavage furrow forms in the plasma membrane. A contractile ring containing actin and myosin is assembled at the selected site of the future cleavage furrow. Ring contraction produces the force to constrict the cleavage furrow and the daughter cells separate by membrane fusion.)
SL-0072	coated pit (Coated pits are regions of the donor membrane where the assembly of the vesicle coat take place. The coat assembles from soluble protomers such as coat protein complex-I and coat protein complex-II. The components of the coat often define the intracellular sorting station, and contribute to both membrane deformation and local movement of the resulting transport intermediate following scission. During the first steps of the vesicle-mediated membrane transport, coated pits are internalized to form coated vesicles which transport proteins between distinct membrane-bound organelles.)
SL-0073	Contractile vacuole (A contractile vacuole (CV) complex is a membrane-bound osmoregulatory organelle of fresh water and soil amoebae and protozoa which segregates excess cytosolic water, acquired osmotically, and expel it to the cell exterior, so that the cytosolic osmolarity is kept constant under a given osmotic condition. Depending on the organism, the CV complex (CVC) shows different degrees of specialization of its tubular and vesicular elements. In the most elaborate CVCs of certain ciliates, e.g. Paramecium, a central vacuole, the contractile vacuole or cisterna, is surrounded by radially oriented ampullae or radial arms. These ampullae are connected to a network of channels. Excess cytosolic water, acquired osmotically, is segregated by the radial arms and enters the vacuole, so that the vacuole swells (the fluid-filling phase). The vacuole then rounds (the rounding phase) and the radial arms sever from the vacuole. The vacuole membrane then fuses with the plasma membrane at the pore region and the pore opens. The vacuole shrinks as its fluid is discharged through the pore (the fluid-discharging phase). The pore closes when the fluid has been discharged. The radial arms then reattach to the vacuole, so that the vacuole swells again as the fluid enters from the arms (the next fluid-filling phase).)
SL-0320	Contractile vacuole lumen (The contractile vacuole compartment bounded by the contractile vacuole membrane.)
SL-0074	Contractile vacuole membrane (The membrane surrounding a contractile vacuole. A contractile vacuole (CV) complex is a membrane-bound osmoregulatory organelle of fresh water and soil amoebae and protozoa which segregates excess cytosolic water, acquired osmotically, and expel it to the cell exterior, so that the cytosolic osmolarity is kept constant under a given osmotic condition.)
SL-0075	COPI-coated vesicle (COPI-coated vesicles mediate the vesicular transport of cargo such as proteins. COPI-coated vesicles are believed to bud from the cis-cisternae of the Golgi apparatus, mediate traffic from the cis-Golgi back to the ER (retrograde), and govern the flow pattern of materials within the Golgi stack. COPI is composed of the coatomer, which is a seven-subunit protein complex that participates in the formation of Golgi-derived coated vesicles. Evidence has also been presented for anterograde intra-Golgi transport mediated by COPI in yeast and mammals.)
SL-0321	COPI-coated vesicle lumen (The COPI-coated vesicle compartment bounded by the COPI-coated vesicle membrane.)
SL-0076	COPI-coated vesicle membrane (The membrane surrounding a COPI-coated vesicle. COPI-coated vesicles mediate the vesicular transport of cargo such as proteins. COPI-coated vesicles are believed to bud from the cis-cisternae of the Golgi apparatus, mediate traffic from the cis-Golgi back to the ER (retrograde), and govern the flow pattern of materials within the Golgi stack. COPI is composed of the coatomer, which is a seven-subunit protein complex that participates in the formation of Golgi-derived coated vesicles. Evidence has also been presented for anterograde intra-Golgi transport mediated by COPI in yeast and mammals.)
SL-0077	COPII-coated vesicle (COPII-coated vesicles mediate the vesicular transport of cargo such as proteins. COPII-coated vesicles are believed to bud from the endoplasmic reticulum be involved in the anterograde transport between the ER to Golgi and travel toward the Endoplasmic reticulum-Golgi intermediate compartment, where they fuse and release their contents (anterograde transport). The COPII coat has five main functional components that are highly conserved in all eukaryotic cells.)
SL-0322	COPII-coated vesicle lumen (The COPII-coated vesicle compartment bounded by the COPII-coated vesicle membrane.)
SL-0078	COPII-coated vesicle membrane (The membrane surrounding a COPII-coated vesicle. COPII-coated vesicles mediate the vesicular transport of cargo such as proteins. COPII-coated vesicles are believed to bud from the endoplasmic reticulum be involved in the anterograde transport between the ER to Golgi and travel toward the Endoplasmic reticulum-Golgi intermediate compartment, where they fuse and release their contents (anterograde transport). The COPII coat has five main functional components that are highly conserved in all eukaryotic cells.)
SL-0079	Cornified envelope (The cornified envelope is a structure which is formed beneath the plasma membrane in terminally differentiating stratified squamous epithelia. It provides a vital physical barrier to these tissues in mammals and consists of a 10 nm thick layer of highly crosslinked insoluble proteins. In the specialized case of the epidermis, a 5 nm thick layer of ceramide lipids is covalently bound to the proteins. These organize extracellular lipids into orderly lamellae and, together, the cell envelope and extracellular lipids are essential for effective physical and water barrier function in the skin.)
SL-0541	Cortical granule (Cortical granules are secretory organelles located under the cell membrane of unfertilized oocytes. Following fertilization, cortical granules fuse with the oocyte's cell membrane and release their contents into the extracellular matrix. This exocytosis, known as the cortical reaction, is involved in the prevention of polyspermy. Cortical granules are found in all mammals and many other vertebrates, as well as some invertebrates.)
SL-0080	cvt vesicle (A cvt vesicle is a double membrane-layered vesicle implicated in the cytoplasm to vacuole targeting pathway.)
SL-0323	cvt vesicle lumen (The cvt vesicle compartment bounded by the cvt vesicle membrane.)
SL-0081	cvt vesicle membrane (The membrane surrounding a cvt vesicle. A cvt vesicle is a double membrane-layered vesicle implicated in the cytoplasm to vacuole targeting pathway.)
SL-0082	cyanelle (A cyanelle is a photosynthetic organelle of glaucocystophyte algae. Cyanelles are surrounded by a double membrane and, in between, a peptidoglycan wall. Thylakoid membrane architecture is cyanobacteria-like. Historically, the term cyanelle is derived from a classification as endosymbiotic cyanobacteria, and thus is not fully correct.)
SL-0479	cyanelle envelope (The envelope of a cyanelle comprises the inner and outer cyanelle membrane including the intermembrane space and the vestigal peptidoglycan layer.)
SL-0480	cyanelle inner membrane (The inner membrane of a cyanelle is the membrane which separates the cyanelle stroma from the intermembrane space.)
SL-0481	cyanelle intermembrane space (The intermembrane space between the inner and the outer cyanelle membranes, it includes the vestigial peptidoglycan layer.)
SL-0083	cyanelle membrane (The membrane surrounding a cyanelle, a photosynthetic organelle of glaucocystophyte algae. Also used when it is not clear in which cyanelle membrane (outer membrane, inner membrane or thylakoid) a protein is found.)
SL-0482	cyanelle outer membrane (The outer membrane of a cyanelle is the cyanelle membrane facing the cytoplasm.)
SL-0350	cyanelle stroma (The internal space enclosed by the cyanelle double membrane but excluding the thylakoid space. This space, filled with a colorless hydrophilic matrix, contains DNA, ribosomes and some temporary products of photosynthesis.)
SL-0277	cyanelle thylakoid (The cyanelle thylakoid is an internal system of interconnected photosynthetic membranes resembling that of cyanobacteria found in the cyanelles of certain algae.)
SL-0084	cyanelle thylakoid lumen (The cyanelle thylakoid lumen is the cyanelle compartment bounded by the thylakoid membranes.)
SL-0085	cyanelle thylakoid membrane (The lipid bilayer membrane of any thylakoid within a cyanelle, a photosynthetic organelle of glaucocystophyte algae.)
SL-0543	Cytolytic granule (A specialized secretory lysosome that is present in cells with cytolytic capability such as cytotoxic T lymphocytes and natural killer cells. Cytolytic granules mediate the storage and regulated excretion of lytic molecules for killing of target cells.)
SL-0546	Cytolytic granule lumen (The cytolytic granule comparment bounded by the cytolytic granule membrane.)
SL-0547	Cytolytic granule membrane (The cytolytic granule membrane is the membrane surrounding a cytolytic granule.)
SL-0086	Cytoplasm (The cytoplasm is the content of a cell within the plasma membrane and, in eukaryotics cells, surrounding the nucleus. This three-dimensional, jelly-like lattice interconnects and supports the other solid structures. The cytosol (the soluble portion of the cytoplasm outside the organelles) is mostly composed of water and many low molecular weight compounds. In eukaryotes, the cytoplasm also contains a network of cytoplasmic filaments (cytoskeleton).)
SL-0281	Cytoplasmic granule (Protein found in or associated with cytoplasmic granules.)
SL-0324	Cytoplasmic granule lumen (The cytoplasmic granule compartment bounded by the cytoplasmic granule membrane.)
SL-0282	Cytoplasmic granule membrane (The membrane surrounding a cytoplasmic granule.)
SL-0495	Cytoplasmic ribonucleoprotein granule (Cytoplasmic ribonucleoprotein granule is a collective term for distinct protein and RNA foci inside the cytoplasm, including processing bodies (P-bodies), stress granules, neuronal ribonucleoprotein granule (neuronal transport granule) and germ granules (germline granules).)
SL-9910	Cytoplasmic side (Protein found mostly on the cytoplasmic side of the membrane.)
SL-0088	Cytoplasmic vesicle (The cytoplasmic vesicles mediate vesicular transport among the organelles of secretory and endocytic systems. These transport vesicles are classified by the identity of the protein coat used in their formation and also by the cargo they contain, e.g. clathrin-, COPI-, and COPII-coated vesicles, synaptic vesicles, secretory vesicles, phagosomes, etc.)
SL-0325	Cytoplasmic vesicle lumen (The cytoplasmic vesicle compartment bounded by the cytoplasmic vesicle membrane.)
SL-0089	Cytoplasmic vesicle membrane (The membrane surrounding a cytoplasmic vesicle. The cytoplasmic vesicles mediate vesicular transport among the organelles of secretory and endocytic systems.)
SL-0090	cytoskeleton (The cytoskeleton is a dynamic three-dimensional filamentous structure in the cytoplasm. Its roles include maintenance of cell shape, cell movement (in eukaryotes), cytokinesis, and the organization of organelles or organelle-like structures within the cell. The cytoskeleton includes microfilaments (actin-like proteins), microtubules (tubulin-like proteins), the intermediate filaments (mostly in eukaryotes) and the MinD-ParA proteins, which appear to be unique to prokaryotes.)
SL-0091	cytosol (The cytosol is the unstructured aqueous phase of the cytoplasm excluding organelles, membranes, and insoluble cytoskeletal components.)
SL-0283	dendrite (The dendrite is a short and typically branched process extending from the cell body of a neuron that receives and integrates signals coming from axons of other neurons, and conveys the resulting signal to the body of the cell.)
SL-0284	dendritic spine (A dendritic spine is a small, club-like cell protrusion from neuronal dendrites that form the postsynaptic component of most excitatory synapses in the brain. Spines are complex, dynamic structures that contain a dense array of cytoskeletal, transmembrane, and scaffolding molecules. Despite their modest size, most spines contain at least some form of smooth endoplasmic reticulum, which in the largest spines takes the form of a specialized organelle called the "spine apparatus". These cell protrusions play a critical role in synaptic transmission and plasticity.)
SL-0285	dendritic spine membrane (The portion of the cell membrane surrounding the dendritic spine, a small, club-like cell protrusion from neuronal dendrites that form the postsynaptic component of most excitatory synapses in the brain.)
SL-0092	desmosome (A desmosome (DS) is a button-like adhesion complex that stabilizes epithelial sheets by anchoring the intermediate filament cytoskeleton to the cell junction. Desmosomes are found particularly in tissues subjected to mechanical stress.)
SL-0542	Dynein axonemal particle (Dynein axonemal particles are ciliated cell-specific cytoplasmic membrane-less organelles, where dynein axonemal assembly factors (DNAAFs) and chaperones flux through rapidly while dynein subunits are stably retained. May act in storage or assembly of axonemal dyneins for rapid deployment to cilia.)
SL-0094	Early endosome (Early endosomes form a tubulovesicular network spread throughout the cortical cytoplasm of the cell. Early endosomes are the primary sorting station in the endocytic pathway from which endocytosed molecules can be recycled back to the cell membrane or targeted to degradation in the lysosomes. Loaded by endocytosed molecules in 1 to 4 minutes, their acidic luminal pH around 6.0 allows ligand release from recycling receptors.)
SL-0337	Early endosome lumen (The early endosomal compartment bounded by the membrane of early endosomes, which form a tubulovesicular network spread throughout the cortical cytoplasm of the cell.)
SL-0093	Early endosome membrane (The membrane surrounding the early endosomes, which form a tubulovesicular network spread throughout the cortical cytoplasm of the cell.)
SL-0147	Endomembrane system (A collection of membranous structures involved in transport within the cell. The main components of the endomembrane system are endoplasmic reticulum, Golgi apparatus, vesicles and cell membrane and nuclear envelope. The endomembrane system does not include the membranes of mitochondria or plastids.)
SL-0095	Endoplasmic reticulum (The endoplasmic reticulum (ER) is an extensive network of membrane tubules, vesicles and flattened cisternae (sac-like structures) found throughout the eukaryotic cell, especially those responsible for the production of hormones and other secretory products. The membrane is a continuation of the outer nuclear membrane, it encloses the cytosol cisternal spaces (or internal lumen), which are continuous with the nuclear periplasmic space. The ER sustains many general functions, including protein synthesis, protein modification, protein folding, insertion of membrane proteins, sequestration of calcium, production of phospholipids and steroids and transport of proteins destined for membranes and secretion.)
SL-0096	Endoplasmic reticulum lumen (The lumen of the endoplasmic reticulum (ER) is the area enclosed by the endoplasmic reticulum membrane, an extensive network of membrane tubules, vesicles and flattened cisternae (sac-like structures) found throughout the eukaryotic cell, especially those responsible for the production of hormones and other secretory products.)
SL-0097	Endoplasmic reticulum membrane (The membrane surrounding the endoplasmic reticulum (ER). The endoplasmic reticulum is an extensive network of membrane tubules, vesicles and flattened cisternae (sac-like structures) found throughout the eukaryotic cell, especially those responsible for the production of hormones and other secretory products.)
SL-0098	Endoplasmic reticulum-Golgi intermediate compartment (The ER-Golgi intermediate compartment is a collection of tubulovesicular membrane clusters in the vicinity of ER exit sites. The ERGIC mediates transport between the endoplasmic reticulum and the Golgi and is the first anterograde/retrograde sorting station in the secretory pathway. ERGIC has not been observed in yeast and plants.)
SL-0326	Endoplasmic reticulum-Golgi intermediate compartment lumen (The ERGIC compartment bounded by the ERGIC membrane.)
SL-0099	Endoplasmic reticulum-Golgi intermediate compartment membrane (The membrane surrounding the ER-Golgi intermediate compartment, which is a collection of tubulovesicular membrane clusters in the vicinity of ER exit sites.)
SL-0101	Endosome (Endosomes are highly dynamic membrane systems involved in transport within the cell, they receive endocytosed cell membrane molecules and sort them for either degradation or recycling back to the cell surface. They also receive newly synthesised proteins destined for vacuolar/lysosomal compartments. In certain cell types, endosomal multivesicular bodies may fuse with the cell surface in an exocytic manner. These released vesicles are called exosomes.)
SL-0327	Endosome lumen (The endosomal compartment bounded by the endosomal membrane.)
SL-0100	Endosome membrane (The membrane surrounding the endosome. Endosomes are highly dynamic membrane systems involved in transport within the cell, they receive endocytosed cell membrane molecules and sort them for either degradation or recycling back to the cell surface.)
SL-0109	esterosome (The esterosome is a crystalline inclusion body. This vesicle is filled with crystals of proteins showing sequence similarities with various esterases. The enclosing membrane has the characteristics of RER.)
SL-0328	esterosome lumen (The esterosomal compartment bounded by the esterosomal membrane.)
SL-0108	esterosome membrane (The membrane surrounding the esterosome, a crystalline inclusion body is a vesicle filled with crystals of proteins showing sequence similarities with various esterases.)
SL-0110	etioplast (The etioplast is a plastid found in plants grown in the dark.)
SL-0329	etioplast membrane (The membrane surrounding the etioplast, a plastid found in plants grown in the dark. Also used when it is not clear in which etioplast membrane a protein is found.)
SL-0330	etioplast stroma (The etioplast stroma is the space enclosed by the double membrane of an etioplast but excluding the prothylakoid space. It contains the etioplast DNA.)
SL-0466	extracellular exosome (Exosomes are 30-120 nm microvesicles of endocytic origin secreted by most cell types and found in abundance in body fluids, including blood, saliva, urine, and breast milk. They contain various molecular constituents of their cell of origin, including proteins and nucleic acids, and carry this cargo between diverse locations in the body. These microvesicles form by budding into the lumen of the multivesicular bodies (MVBs) and are released to extracellular fluids by fusion of MVBs with the plasma membrane.)
SL-0111	extracellular matrix (The extracellular matrix (ECM) is a vague term used to refer to all the material surrounding cells in a multicellular organism, except circulating fluids such as blood or lymph. In some cases, the ECM accounts for more of the organism's bulk than its cells. In plants, arthropods and fungi the ECM is primarily composed of nonliving material such as cellulose or chitin. In vertebrates the ECM consists of a complex network including the basement membrane, collage, elastin, proteoglycans and hyaluronan.)
SL-9911	Extracellular side (Protein found mostly on the extracellular side of the membrane.)
SL-0112	extracellular space (The extracellular space is the space outside of the cell membrane but part of a multicellular organism. The term is typically used for a secreted protein that remains associated with the cell, e.g. as part of the extracellular matrix. It is not used for a protein that is secreted into the blood stream (or other body fluids) of eukaryotic, multicellular organisms, such as insulin or fibroblast growth factors.)
SL-0499	Extracellular vesicle (Extracellular vesicles are vesicles that have been released by cells.)
SL-0500	Extracellular vesicle membrane (The membrane surrounding an extracellular vesicle.)
SL-9918	Extravirionic side (Protein found mostly on the extracellular side of the virion membrane.)
SL-0286	filopodium (The filopodium is a thin, tubular, finger-like cell protrusion filled with straight bundled, crosslinked actin filaments having their barbed ends directed towards the cell membrane. Filopodium are observed at the advancing front of the migrating cell and are implicated in cell motility as well as in cell-substrate adhesion. Filopodia explore the environment and form nascent adhesive structures in response to external signaling cues. These long and highly dynamic protrusions, which can extend and retract, are involved in mesenchymal migration. They are observed in many cell types, such as amoebae, keratinocytes, fibroblasts and in neurite growth cones.)
SL-0287	filopodium membrane (The portion of the cell membrane surrounding the filopodium. The filopodium is a thin, tubular, finger-like cell protrusion filled with straight bundled, crosslinked actin filaments having their barbed ends directed towards the cell membrane.)
SL-0470	filopodium tip (The end of the filopodium distal to the body of the cell. The filopodium is a thin, tubular, finger-like cell protrusion filled with straight bundled, crosslinked actin filaments having their barbed ends directed towards the cell membrane.)
SL-0113	Fimbrium (A fimbrium or pilus is a hair-like, non-flagellar, polymeric filamentous appendage that extend from the bacterial or archaeal cell surface, such as type 1 pili, P-pili, type IV pili or curli. Pili perform a variety of functions, including surface adhesion, motility, cell-cell interactions, biofilm formation, conjugation, DNA uptake, and twitching motility.)
SL-0116	Flagellar pocket (The flagellar pocket is a structure found in trypanosomes. The flagellar pocket is formed by an invagination in the plasma membrane where the flagellum emerges from the cell body. This pocket provides the portal through which most of the dynamic interactions with the host occur.)
SL-0117	flagellum (The flagellum is a long whip-like or feathery structure which propels the cell through a liquid medium. This motile cilium is produced by the unicellular eukaryotes, and by the motile male gametes of many eukaryotic organisms. The flagella commonly have a characteristic axial '9+2' microtubular array (axoneme) and bends are generated along the length of the flagellum by restricted sliding of the nine outer doublets.)
SL-0114	flagellum axoneme (The flagellum axoneme is the most prominent structural component of the flagellum, which is a long whip-like or feathery structure which propels the cell through a liquid medium. The flagellum axoneme consists of a characteristic axial '9+2' microtubular array.)
SL-0308	flagellum basal body (The basal body is a barrel-shaped microtubule-based structure required for the formation of flagella. Basal bodies, structuraly related to and often interconvertible with centrioles, serves as a nucleation site for axoneme growth.)
SL-0115	flagellum membrane (The portion of the cell membrane surrounding the flagellum, a long whip-like or feathery structure which propels the cell through a liquid medium.)
SL-0118	focal adhesion (Focal adhesions are sites of tightest adhesion made to the underlying extracellular matrix by cells in culture. They serve a structural role, linking the ECM on the outside to the actin cytoskeleton on the inside. In addition, they are sites of signal transduction, initiating signaling pathways in response to adhesion. Focal adhesions are formed around a transmembrane core of an alpha-beta integrin heterodimer, which binds to a component of the extracellular matrix on its extracellular region, constitutes the site of anchorage of the actin cytoskeleton to the cytoplasmic side of the membrane, and mediates various intracellular signaling pathways.)
SL-0119	Forespore (Sporulation leads to the formation of an asymmetrically positioned division septum (the polar septum) which divides the developing cell into two adjacent, but unequal-sized compartments called the forespore (the smaller cell) and the mother cell.)
SL-0120	Forespore inner membrane (The inner membrane of the smaller compartment, the forespore, of a sporulating cell.)
SL-0121	Forespore intermembrane space (The intermembrane space between the inner and outer forespore membranes.)
SL-0122	Forespore membrane (The membrane surrounding a forespore. This term is used when it is not known if the protein is found in or associated with the inner or outer forespore membrane.)
SL-0123	Forespore outer membrane (The outer membrane of the smaller compartment, the forespore, of a sporulating cell.)
SL-0124	gap junction (A gap junction (GJ) is a communicating junction between certain cell types that allows the passive passage of ions and small molecules providing a direct pathway for electrical and metabolic signaling. In vertebrates GJs are patches of channels, each cell membrane contains a 'hemichannel', so that each GJ channel is composed of two hemichannels (connexons), which in turn are composed of six membrane proteins (connexins (Cxs)). In invertebrates, GJ channels are formed by another large family of integral membrane proteins, the innexins. GJ exists in all metazoans (multi-cellular organisms) and in almost all cell types in these organisms.)
SL-0125	gas vesicle (Gas vesicles are rigid hollow structures found in five phyla of the Bacteria and two groups of the Archaea, but mostly restricted to planktonic microorganisms, in which they provide buoyancy. By regulating their relative gas vesicle content, aquatic microbes are able to perform vertical migrations. The gas vesicle is impermeable to liquid water, but is highly permeable to gases and is normally filled with air. Two proteins have been shown to be present in the gas vesicle: GVPa, which makes the ribs that form the structure, and GVPc, which binds to the outside of the ribs and stiffens the structure against collapse.)
SL-0331	gas vesicle lumen (The gas vesicle compartment bounded by the membrane of a gas vesicle.)
SL-0126	gas vesicle membrane (The membrane surrounding a gas vesicle.)
SL-0127	gem (Gems are nuclear bodies, often found paired or juxtaposed to Cajal bodies, called gems for "gemini of CBs". It is not clear if Cajal bodes and gems are distinct nuclear bodies or if they should be considered as two manifestations of the same structure.)
SL-0129	Glycosome (The glycosome is a specialized peroxisome found in all members of the protist order Kinetoplastida examined. Nine enzymes involved in glucose and glycerol metabolism are associated with these organelles. These enzymes are involved in pathways which, in other organisms, are usually located in the cytosol.)
SL-0332	Glycosome matrix (The glycosomal compartment bounded by the membrane of the glycosome, a specialized peroxisome found in all members of the protist order Kinetoplastida examined.)
SL-0128	Glycosome membrane (The membrane surrounding the the glycosome, a specialized peroxisome found in all members of the protist order Kinetoplastida examined.)
SL-0131	Glyoxysome (The glyoxysome is a plant peroxisome, especially found in germinating seeds, involved in the breakdown and conversion of fatty acids to acetyl-CoA for the glyoxylate bypass. Since it is also rich in catalase, the glyoxysome may be related to the microbodies or peroxisomes or derived from them.)
SL-0333	Glyoxysome matrix (The glyoxysomal compartment bounded by the membrane of the glyoxysome, a plant peroxisome, especially found in germinating seeds, involved in the breakdown and conversion of fatty acids to acetyl-CoA for the glyoxylate bypass.)
SL-0130	Glyoxysome membrane (The membrane surrounding the glyoxysome, a plant peroxisome, especially found in germinating seeds, involved in the breakdown and conversion of fatty acids to acetyl-CoA for the glyoxylate bypass.)
SL-0132	Golgi apparatus (The Golgi apparatus is a series of flattened, cisternal membranes and similar vesicles usually arranged in close apposition to each other to form stacks. In mammalian cells, the Golgi apparatus is juxtanuclear, often pericentriolar. The stacks are connected laterally by tubules to create a perinuclear ribbon structure, the 'Golgi ribbon'. In plants and lower animal cells, the Golgi exists as many copies of discrete stacks dispersed throughout the cytoplasm. The Golgi is a polarized structure with, in most higher eukaryotic cells, a cis-face associated with a tubular reticular network of membranes facing the endoplasmic reticulum, the cis-Golgi network (CGN), a medial area of disk-shaped flattened cisternae, and a trans-face associated with another tubular reticular membrane network, the trans-Golgi network (TGN) directed toward the plasma membrane and compartments of the endocytic pathway. The Golgi apparatus receives the entire output of de novo synthesized polypeptides from the ER, and functions to posttranslationally process and sort them within vesicles destined to their proper final destination (e.g. plasma membrane, endosomes, lysosomes).)
SL-0133	Golgi apparatus lumen (The Golgi lumen consist of the cisternal spaces (or internal lumen) of the Golgi apparatus.)
SL-0134	Golgi apparatus membrane (The membrane surrounding the Golgi apparatus.)
SL-0521	Golgi outpost (Golgi outpost is an organelle that shares common markers with the perinuclear Golgi body, but is typically much smaller in size and located far from the nucleus or cell body. Golgi outposts can function as acentrosomal microtubule-organizing centers (MTOCs) and play specialized roles in building the cytoarchitecture of neuronal dendrites, muscle cells, and oligodendrocytes.)
SL-0135	Golgi stack (The Golgi stack consist of a series of flattened curved and parallel series saccules, called cisternae or dictyosomes, that form the central portion of the Golgi complex. The stack usually comprises cis, medial, and trans cisternae; the cis- and trans-Golgi networks are not considered part of the stack.)
SL-0334	Golgi stack lumen (The Golgi stack compartment bounded by the membrane of the Golgi stack.)
SL-0136	Golgi stack membrane (The membrane surrounding the Golgi stack.)
SL-9902	GPI-anchor (Protein bound to the lipid bilayer of a membrane through a GPI-anchor (glycosylphosphatidylinositol anchor), a complex oligoglycan linked to a phosphatidylinositol group, resulting in the attachment of the C-terminus of the protein to the membrane.)
SL-9920	GPI-like-anchor (Protein bound to the lipid bilayer of a membrane through a GPI-like-anchor, a complex oligoglycan linked to a sphingolipidinositol group, resulting in the attachment of the C-terminus of the protein to the membrane.)
SL-0288	growth cone (The growth cone is a dynamic cell protrusion at the tip of the extending axon or dendrite. Neuron extends a specialized structure, the growth cone, to find targets in the wiring of the nervous system. The growth cone explores its environment by extending dynamic filopodia. Growth cone is composed of an ensemble of protruding and retracting veils (lamellipodia), net growth cone advance may be considered the vector sum of all veil's motility behavior in response to their local environments. Filopodia play a key role in delimiting veils and serving to nucleate the formation of new veils.)
SL-0289	growth cone membrane (The portion of the cell membrane surrounding a growth cone.)
SL-0477	H zone (The A band of a sarcomer is bisected by a paler zone, the H zone, where the thick and the thin filaments do not overlap. At the center of the H zone is the M line.)
SL-0137	hemidesmosome (The hemidesmosome is an integrin-containing adhesive junction located along the basal layer of cells where they abut the basement membrane zone. As the name implies, only half the desmosome is present; only one cell is participating, the second cell being represented by the basement membrane.)
SL-0431	Host (The host is any organism in which another organism, or symbiont, spends part or all of its life cycle. Most animals and plants live symbiotically with microorganisms. The larger organism is called the host and smaller organism the symbiont. When the interactions between the symbiont and the host benefits both partners, the symbiotic interaction is called mutualism. When there is a negative effect on one of the partners, it is called a parasitic symbiosis and if there is no beneficial or negative effect it is a commensal symbiosis. These clear-cut definitions are not always easy to apply in nature. Take the bacterium Pseudomonas aeruginosa for example. This bacterium can be found on the skin of humans and not cause disease, perhaps we would call it a commensial, but if the person has a severe burn P. aeruginosa can cause an infection and becomes a pathogen (a medicinal term for parasitism). This type of organism is called an opportunistic pathogen. Whether an association is a mutualist, commensal or parasitic depends on the relative "strengths" of the partners and the balance of power can change over time.)
SL-0372	Host apical cell membrane (The fraction of the host cell membrane at the apical end of the host cell, which faces the outside world or the lumen of the host cavity.)
SL-0459	Host basolateral cell membrane (The fraction of the host cell membrane at the basolateral side of the cell, which faces adjacent host cells and the underlying host connective tissue.)
SL-0428	host caveola (The host caveola is a small (apparently) uncoated pit found mostly in the host cell membrane of many highly differentiated mammalian cells, such as adipocytes, endothelial cells and muscle cells. These flask-shaped invaginations are defined by the presence of caveolins and contains a subset of lipid-raft components, including cholesterol and sphingolipids.)
SL-0427	Host cell (A cell within a host organism including the host cell membrane and any external encapsulating structures such as the host cell wall and cell envelope.)
SL-0421	Host cell envelope (The host cell envelope comprises the cell membrane, the cell wall and an outer membrane if present. The Gram-positive bacteria host cell envelope consists of the cytoplasmic membrane, cell wall and capsule. The Gram-negative host envelope consists of the cytoplasmic membrane, cell wall, periplasmic space, outer membrane and capsule. The archaeal cell host envelope consists generally of single typical bilayer membrane covered by a surface layer (S-layer). Ignicoccus host species exceptionally have an outer membrane which encloses a large periplasmic space. Extreme host thermophiles and acidophiles have tetraether type glycerophospholipids with C40 isoprenoid chains. The yeast host cell envelope is a protecting capsule which consists of the cytoplasmic membrane, the periplasmic space, and the cell wall.)
SL-0373	Host cell inner membrane (The prokaryotic host cell inner membrane is the selectively permeable membrane which separates the host cytoplasm from the host periplasm in prokaryotes with 2 membranes.)
SL-0374	Host cell junction (The host cell junction is a host cell-host cell or host cell-host extracellular matrix contact within a tissue of a host multicellular organism, especially abundant in host epithelia. In vertebrates, there are three major types of cell junctions: anchoring junctions (e.g. adherens junctions), communicating junctions (e.g. gap junctions) and occluding junctions (e.g. tight junctions).)
SL-0375	Host cell membrane (The host cell membrane is the selectively permeable membrane which separates the host cytoplasm from its surroundings. Known as the host cell inner membrane in prokaryotes with 2 membranes.)
SL-0376	Host cell outer membrane (The prokaryotic host cell outer membrane is the selectively permeable membrane which separates the prokaryotic periplasm from its surroundings in prokaryotes with 2 membranes. Traditionally only Gram-negative bacteria were thought of as having an outer membrane, but recent work has shown some Actinobacteria, including Mycobacterium tuberculosis, as well as at least 1 archaea (Ignicoccus hospitalis) have a cell outer membrane.)
SL-0377	Host cell projection (A host cell projection is a host cell protrusion such as pseudopodium, filopodium, lamellipodium, growth cone, flagellum, acrosome, axon, pili or bacterial comet tail. These membrane-cytoskeleton-coupled processes are involved in many biological functions, such as host cell motility, cancer-cell invasion, endocytosis, phagocytosis, exocytosis, pathogen infection, neurite extension and cytokinesis.)
SL-0378	Host cell surface (The outermost side of the host cell.)
SL-0424	Host cell wall (The complex and rigid layer surrounding the host cell. Host cell walls are found in bacteria, archaea, fungi, plants, and algae. The host cell wall is surrounded by an outer membrane in Gram-negative host bacteria, and envelopes the inner or plasma host membrane all host bacteria. It plays a role in host cell shape, cell stability and development, and protection against environmental dangers.)
SL-0429	Host cellular thylakoid (The host cellular thylakoids are formed usually by extensive invaginations of the host cyanobacterial cell membrane. In Synechocystis sp. strain PCC 6803, the thylakoid membranes are physically discontinuous from the plasma membrane, and thus represent bona fide intracellular organelles.)
SL-0430	Host cellular thylakoid membrane (The membrane of the host cyanobacterial cellular thylakoid.)
SL-0483	Host chloroplast envelope (The envelope of a host chloroplast comprises the inner and outer chloroplast membrane including the intermembrane space.)
SL-0396	host cis-Golgi network (The host cis-Golgi network is an extensive tubulovesicular network bound to the cis face of the Golgi stack and whose function is to receive process the biosynthetic output from the ER.)
SL-0397	host cis-Golgi network membrane (The lipid bilayer surrounding any of the compartments that make up the host cis-Golgi network.)
SL-0381	Host cytoplasm (The host cytoplasm is the content of a host cell within the plasma membrane and, in eukaryotics cells, surrounds the host nucleus.)
SL-0386	Host cytoplasmic vesicle (The host cytoplasmic vesicles mediate vesicular transport among the organelles of host secretory and endocytic systems.)
SL-0387	Host cytoplasmic vesicle membrane (The membrane surrounding a host cytoplasmic vesicle. These vesicles mediate vesicular transport among the organelles of secretory and endocytic systems.)
SL-0383	host cytoskeleton (The host cytoskeleton is a dynamic three-dimensional structure that fills the host cytoplasm of eukaryotic cells. It is responsible for cell movement, cytokinesis, and the organization of the organelles or organelle-like structures within the host cell.)
SL-0384	host cytosol (The host cytosol is the unstructured aqueous phase of the host cytoplasm excluding organelles, membranes, and insoluble cytoskeletal components.)
SL-0461	Host early endosome (The host early endosomes form a tubulovesicular network spread throughout the cortical cytoplasm of the host cell. Host early endosomes are the primary sorting station in the endocytic pathway from which endocytosed molecules can be recycled back to the host cell membrane or targeted to degradation in the host lysosomes.)
SL-0462	Host early endosome membrane (The membrane surrounding the host early endosomes, which form a tubulovesicular network spread throughout the cortical cytoplasm of the host cell.)
SL-0398	Host endomembrane system (A collection of membranous structures involved in transport within the host cell. The main components of the host endomembrane system are endoplasmic reticulum, Golgi apparatus, vesicles, and cell membrane and nuclear envelope. The endomembrane system does not include the membranes of mitochondria or plastids.)
SL-0388	Host endoplasmic reticulum (The host endoplasmic reticulum (ER) is an extensive network of membrane tubules, vesicles and flattened cisternae (sac-like structures) found throughout the eukaryotic host cell, especially those responsible for the production of hormones and other secretory products.)
SL-0389	Host endoplasmic reticulum lumen (The lumen of the host endoplasmic reticulum (ER) is the area enclosed by the host endoplasmic reticulum membrane, an extensive network of membrane tubules, vesicles and flattened cisternae (sac-like structures) found throughout the eukaryotic cell, especially those responsible for the production of hormones and other secretory products.)
SL-0390	Host endoplasmic reticulum membrane (The membrane surrounding the host endoplasmic reticulum (ER). The host endoplasmic reticulum is an extensive network of membrane tubules, vesicles and flattened cisternae (sac-like structures) found throughout the eukaryotic host cell, especially those responsible for the production of hormones and other secretory products.)
SL-0391	Host endoplasmic reticulum-Golgi intermediate compartment (The host ER-Golgi intermediate compartment is a collection of tubulovesicular membrane clusters in the vicinity of host ER exit sites. The host ERGIC mediates transport between the endoplasmic reticulum and the Golgi and is the first anterograde/retrograde sorting station in the host secretory pathway.)
SL-0392	Host endoplasmic reticulum-Golgi intermediate compartment membrane (The membrane surrounding the host ER-Golgi intermediate compartment, which is a collection of tubulovesicular membrane clusters in the vicinity of host ER exit sites.)
SL-0393	Host endosome (Host endosomes are highly dynamic membrane systems involved in transport within the host cell, they receive endocytosed host cell membrane molecules and sort them for either degradation or recycling back to the host cell surface. They also receive newly synthesised proteins destined for host vacuolar/lysosomal compartments.)
SL-0394	Host endosome membrane (The membrane surrounding the host endosome. Host endosomes are highly dynamic membrane systems involved in transport within the cell, they receive endocytosed host cell membrane molecules and sort them for either degradation or recycling back to the host cell surface.)
SL-0425	Host extracellular space (The host extracellular space is the space outside of the host cell membrane but part of a multicellular host organism.)
SL-0379	host filopodium (The host filopodium is a thin, tubular, finger-like host cell protrusion filled with straight bundled, crosslinked actin filaments having their barbed ends directed towards the host cell membrane.)
SL-0474	Host glyoxysome (The host glyoxysome is a plant peroxisome, especially found in germinating seeds, involved in the breakdown and conversion of fatty acids to acetyl-CoA for the glyoxylate bypass. Since it is also rich in catalase, the glyoxysome may be related to the microbodies or peroxisomes or derived from them.)
SL-0395	Host Golgi apparatus (The host Golgi apparatus is a series of flattened, cisternal membranes and similar vesicles usually arranged in close apposition to each other to form stacks. In mammalian cells, the host Golgi apparatus is juxtanuclear, often pericentriolar. The stacks are connected laterally by tubules to create a perinuclear ribbon structure, the 'Golgi ribbon'. In plants and lower animal cells, the host Golgi exists as many copies of discrete stacks dispersed throughout the host cytoplasm. It is a polarized structure with, in most higher eukaryotic cells, a cis-face associated with a tubular reticular network of membranes facing the endoplasmic reticulum, the cis-Golgi network (CGN), a medial area of disk-shaped flattened cisternae, and a trans-face associated with another tubular reticular membrane network, the trans-Golgi network (TGN) directed toward the host plasma membrane and compartments of the host endocytic pathway.)
SL-0426	Host Golgi apparatus membrane (The host membrane surrounding the host Golgi apparatus.)
SL-0399	Host late endosome (Host late endosomes are pleiomorphic with cisternal, tubular and multivesicular regions. They are found in juxtanuclear regions and concentrated at the host microtubule organizing center. They are an important sorting station in the endocytic pathway. Recycling to the plasma membrane and to the Golgi occurs in late endosomes.)
SL-0400	Host late endosome membrane (The membrane surrounding the host late endosomes.)
SL-0401	Host lipid droplet (The host lipid droplet is a dynamic cytoplasmic host organelle which consists of an heterogeneous macromolecular assembly of lipids and proteins covered by a unique phospholipid monolayer. They may play a role in host lipid metabolism and storage, and they may be involved in the regulation of intracellular trafficking and signal transduction.)
SL-0403	Host lysosome (The host lysosome is a membrane-limited organelle present in all eukaryotic cells, which contains a large number of hydrolytic enzymes that are used for degrading almost any kind of cellular constituent, including entire organelles. The mechanisms responsible for delivering cytoplasmic cargo to the host lysosome/vacuole are known collectively as autophagy and play an important role in the maintenance of homeostasis.)
SL-0404	Host lysosome membrane (The membrane surrounding a host lysosome.)
SL-0380	Host membrane (A host membrane is a lipid bilayer which surrounds host enclosed spaces and compartments. This selectively permeable structure is essential for effective separation of a host cell or organelle from its surroundings.)
SL-0405	Host microsome (The host microsomes are a heterogenous set of vesicles 20-200nm in diameter and formed from the host endoplasmic reticulum when host cells are disrupted.)
SL-0406	Host microsome membrane (The membrane surrounding the host microsome.)
SL-0407	Host mitochondrion (The host mitochondrion is a semiautonomous, self-reproducing organelle that occurs in the cytoplasm of all cells of most, but not all, host eukaryotes. Each host mitochondrion is surrounded by a double limiting membrane. The inner membrane is highly invaginated, and its projections are called cristae. They are the sites of the reactions of oxidative phosphorylation, which result in the formation of ATP.)
SL-0408	Host mitochondrion envelope (The host mitochondrial envelope comprises the inner and outer host mitochondrial membrane including the mitochondrial intermembrane space.)
SL-0409	Host mitochondrion inner membrane (The host mitochondrion inner membrane is the membrane which separates the host mitochondrial matrix from the host mitochondrial intermembrane space.)
SL-0410	Host mitochondrion membrane (The membrane surrounding a host mitochondrion. This term is used when it is not known if the protein is found in or associated with the inner or outer host mitochondrial membrane.)
SL-0411	Host mitochondrion outer membrane (The host mitochondrion outer membrane is the host mitochondrial membrane facing the host cytoplasm.)
SL-0453	host multivesicular body (The host multivesicular bodies are a type of late endosome containing internal vesicles formed following the inward budding of the host outer endosomal membrane. The contents of the MVBs are then released into the lysosome lumen. The proteins found in the limiting membrane of MVBs are recycled to other compartments.)
SL-0412	host nucleolus (The host nucleolus is a dark, dense, roughly spherical area of fibers and granules in the host nucleus. Only plant and animal nuclei contain one or more nucleoli, although some do not. No membrane separates the host nucleolus from the host nucleoplasm. It mediates ribosomal RNA biogenesis.)
SL-0413	host nucleoplasm (The host nucleoplasm is a highly viscous liquid contained within the host nucleus that surrounds the chromosomes and other subnuclear organelles. A network of fibers known as the host nuclear matrix can also be found in there.)
SL-0414	Host nucleus (The host nucleus is the most obvious organelle in any host eukaryotic cell. It is a membrane-bound organelle and is surrounded by double membranes. It communicates with the surrounding cytosol via numerous nuclear pores.)
SL-0415	Host nucleus envelope (The host nuclear envelope is a membrane system which surrounds the host nucleoplasm of eukaryotic cells. It is composed of the nuclear lamina, nuclear pore complexes and two nuclear membranes. The space between the two membranes is called the host nuclear intermembrane space.)
SL-0419	Host nucleus inner membrane (The inner membrane surrounding the host nucleus is the membrane which separates the host nuclear matrix from the host intermembrane space.)
SL-0416	Host nucleus lamina (The host nuclear lamina is a meshwork of intermediate filament proteins called lamins and lamin-binding proteins that are embedded in the host inner nuclear membrane.)
SL-0417	Host nucleus matrix (The host nuclear matrix is a three-dimensional filamentous protein network, found in the host nucleoplasm, which provides a structural framework for organising host chromatin, while facilitating transcription and replication.)
SL-0418	Host nucleus membrane (The membrane surrounding the host nucleus. This term is used when it is not known if the protein is found in or associated with the inner or outer host nuclear membrane.)
SL-0446	Host nucleus outer membrane (The outer membrane of the host nucleus is the membrane facing the host cytoplasm. In host mammals, the host outer nuclear membrane is continuous in many places with the host rough endoplasmic reticulum and is dotted with ribosomes.)
SL-0507	host pathogen-containing vacuole (A host-derived vacuole formed upon pathogen internalization by a host cell, within which the pathogen resides. The pathogen extensively modifies the vacuole membrane and contents, as well as its fate, in the process protecting the pathogen from destruction.)
SL-0508	host pathogen-containing vacuole lumen (The volume enclosed in a host-derived vacuole formed upon pathogen internalization by a host cell.)
SL-0509	host pathogen-containing vacuole membrane (The host-derived membrane which encloses a vacuole formed upon pathogen internalization by a host cell.)
SL-0382	host perinuclear region (The host perinuclear region is the host cytoplasmic region just around the host nucleus.)
SL-0420	Host periplasm (The host periplasm is the space between the inner and outer membrane in host Gram-negative bacteria. In Gram-positive bacteria a smaller periplasmic space is found between the inner membrane and the peptidoglycan layer. Also used for the host intermembrane spaces of host fungi and host organelles.)
SL-0475	Host peroxisome (The host peroxisome is a small eukaryotic organelle limited by a single membrane, specialized for carrying out oxidative reactions. Contains mainly peroxidases, several other oxidases and catalase. The catalase regulates the contents of the produced toxic hydrogen peroxide thus protecting the cell. Beta-oxidation of fatty acids is another major function of peroxisomes. In plants and fungi this degradation occurs only in this cellular compartment.)
SL-0432	host phagosome (The host phagosome is a phagocytic host cell-specific compartment. These large endocytic membrane-bound vesicles form upon ingestion by the host cell of extracellular materials.)
SL-0433	host phagosome membrane (The membrane surrounding a host phagosome.)
SL-0385	host plasmodesma (The host plasmodesma (plural host plasmodesmata) is a plasma membrane-lined channel that crosses the cell wall between two adjacent host plant cells and which allows a cytoplasmic exchange between the cells. It provides passage of ions and small molecules, but also of macromolecules such as RNA or proteins. Host plasmodesmata are sheathed by a host plasma membrane that is simply an extension of the cell membrane of the adjoining cells.)
SL-0434	host presynaptic cell membrane (In a host chemical synapse, the host presynaptic membrane is the cell membrane of an axon terminal that faces the receiving cell. The postsynaptic membrane is separated from the presynaptic membrane by the synaptic cleft.)
SL-0422	Host rough endoplasmic reticulum (The host rough endoplasmic reticulum (host RER) is the portion of the host ER which is covered with ribosomes.)
SL-0423	Host rough endoplasmic reticulum membrane (The membrane surrounding the host rough endoplasmic reticulum.)
SL-0504	host secretory vesicle (The host secretory vesicle is a host vesicle that mediates the vesicular transport of cargo - e.g. hormones or neurotransmitters - from an organelle to specific sites at the host cell membrane, where it docks and fuses to release its content.)
SL-0444	Host smooth endoplasmic reticulum (The host smooth endoplasmic reticulum (host SER) is the portion of the host ER which is free of ribosomes.)
SL-0445	Host smooth endoplasmic reticulum membrane (The membrane surrounding the host smooth endoplasmic reticulum.)
SL-0435	host synapse (Host synapses are the communicating cell-cell junctions that allow signals to pass from a host nerve cell to a target cell. In a chemical synapse, the signal is carried by a neurotransmitter which diffuses across a narrow synaptic cleft and activates a receptor on the postsynaptic membrane of the target cell. The target may be a dendrite, cell body, neuronal axon, a specialized region of a muscle or a secretory cell. In an electrical synapse, a direct connection is made between the cytoplasms of two cells via gap junctions.)
SL-0502	host synaptic vesicle (In a host synapse, host synaptic vesicles mediate the exocytosis of neurotransmitters and subsequent re-uptake by endocytosis of vesicular components. Re-uptake is a crucial element in the maintenance of host synaptic transmission in the nervous system.)
SL-0503	host synaptic vesicle membrane (The host membrane surrounding a host synaptic vesicle)
SL-0449	Host thylakoid (The host thylakoid is a membranous cellular structure containing the photosynthetic pigments, reaction centers and electron-transport chain. In host chloroplast, thylakoids stack up to form the grana or stay as single cisternae and interconnect the grana. Thylakoid, where photosynthesis occurs, are found in chloroplasts, cyanelles and in photosynthetic bacteria where they are the extensive invaginations of the plasma membrane.)
SL-0463	host trans-Golgi network (The host trans-Golgi network is a highly dynamic series of interconnected tubules and vesicles at the trans face of the host Golgi stack. The host trans-Golgi network functions in the processing and sorting of glycoproteins and glycolipids at the interface of the biosynthetic and endosomal pathways. The generation and maintenance of host apical and basolateral membranes rely on sorting events that occur in the host TGN.)
SL-0464	host trans-Golgi network membrane (The membrane surrounding the host trans-Golgi network.)
SL-0506	Host vacuole (The host vacuole is a fluid-filled, membrane-bound compartment in the cytoplasm. The precise form and function of vacuoles may vary between phyla. They are employed for a variety of purposes, including storage, as a degradative compartment, cell size control, secretion and following phagocytosis.)
SL-0143	hyaline layer (The hyaline layer is a multilayered extracellular matrix that coats the external surfaces of sea urchin and starfish embryos.)
SL-0145	Hydrogenosome (The hydrogenosome is a redox organelle of anaerobic unicellular eukaryotes which contains hydrogenase and produces hydrogen and ATP by glycolysis. They are found in various unrelated eukaryotes, such as anaerobic flagellates, chytridiomycete fungi and ciliates. Most hydrogenosomes lack a genome, but some like that of the anaerobic ciliate Nyctotherus ovalis, have retained a rudimentary genome.)
SL-0335	Hydrogenosome lumen (The hydrogenosomal compartment bounded by the membrane of the hydrogenosome, a redox organelle found in anaerobic unicellular eukaryotes.)
SL-0144	Hydrogenosome membrane (The membrane surrounding the hydrogenosome, a redox organelle found in anaerobic unicellular eukaryotes.)
SL-0478	I band (The appearance of the striated muscle is created by a pattern of alternating dark A bands and light I bands. I bands are composed of thin actin filaments and proteins that bind actin and they are bisected by the Z line. The thin filaments extend in each direction from the Z-disk, where they do not overlap the thick filaments, they create the light I band.)
SL-0488	Inflammasome (Inflammasomes are supramolecular micron-sized complexes that assemble in the cytosol adjacent to the nucleus in response to pathogens and other damage-associated signals. The inflammasome assembly leads to the activation of proinflammatory procaspases, hence is usually involved in innate immunity and inflammation. The core of inflammasomes consists of at least 2 components: a signal sensor and an effector inflammatory caspase (mostly CASP1). However, most inflammasomes contain a third element, an adaptor (often ASC/PYCARD). The interaction between the sensor component and the adaptor initiates speck formation (nucleation) which greatly enhances further addition of soluble adaptor molecules to the speck in a prion-like polymerization process. The kinetic properties of the adaptor aggregation have been shown to generate a rapid 'all-or-none' response, this is why only one speck by cell is observed.)
SL-0362	Inner membrane complex (The inner membrane complex, found in apicocomplexan parasites, is composed of flattened membrane cisternae closely associated to the cell membrane. Together, the cell membrane and the IMC form a triple lipid bilayer called the pellicle (or cell wall).)
SL-9912	Intermembrane side (Protein found mostly on the intermembrane side of the membrane.)
SL-0146	interphotoreceptor matrix (In vertebrates, the photoreceptors are separated from the retinal pigment epithelium by the subretinal space, which contains a specialized extracellular material referred to as interphotoreceptor matrix. The IPM mediates key interactions between the photoreceptors and RPE including adhesion, phagocytosis, outer segment stability, nutrient exchange, development, and vitamin A trafficking in the visual cycle.)
SL-9919	Intravirionic side (Protein found mostly on the intravirionic side of the virion membrane.)
SL-0148	invadopodium (The invadopodium is a localized and persitent cell protrusion similar to the highly dynamic podosome, but larger. These structures protrudes into the extracellular matrix. Invadopodial protrusions are enriched in integrins, tyrosine kinase signaling machinery, soluble and membrane proteases including matrix metalloproteases, actin and actin-associated proteins. Essential for physiological and pathological cell invasion and metastasis these structures are involved in focalized degradation of the extracellular matrix. Invadopodia form underneath the cell body, often close to the nucleus and proximal to the Golgi complex, and are rarely found at the cell periphery. Their half-life is quite extended. As invadopodia and podosomes are similar in appearance, location and composition, it is likely that a thin line separates these two entities in time and function.)
SL-0290	invadopodium membrane (The portion of the cell membrane surrounding an invadopodium.)
SL-0149	kinetochore (The kinetochore is a protein complex assembled on the centromeric region of DNA. It provides the major attachement point for the spindle microtubules during mitotic or meiotic division to pull the chromosomes apart. In monocentric chromosomes, the kinetochores of point centromeres bind a single microtubule and the larger kinetochores of regional centromeres interact with a number of microtubules. In holocentric chromosomes, the kinetochores bind the diffuse centromere along the length of the chromosomes.)
SL-0150	kinetoplast (The mitochondrial DNA of trypanosomatid protozoa is termed kinetoplast DNA (kDNA). kDNA is a massive network, composed of thousands of topologically interlocked DNA circles. Each cell contains one network condensed into a disk-shaped structure within the matrix of its single mitochondrion. The kDNA circles are of two types, maxicircles present in a few dozen copies and minicircles present in several thousand copies.)
SL-0460	kinocilium (The kinocilium is an immotile primary cilium that is found at the apical surface of auditory receptor cells. Hair bundles, the mechanosensory device of the sensory hair cells, are composed of height-ranked rows of stereocilia and a single kinocilium that are interconnected by extracellular proteinaceous links.)
SL-0291	lamellipodium (The lamellipodium is a broad, flat, veil-shaped cell protrusion formed at the leading edge of migrating cells. Lamellipodium contain a branched dendritic network of actin filaments having their barbed ends directed towards the cell membrane. It is associated with ameboid motility (or crawling motility).)
SL-0292	lamellipodium membrane (The portion of the cell membrane surrounding a lamellipodium.)
SL-0152	Late endosome (Late endosomes are pleiomorphic with cisternal, tubular and multivesicular regions. They are found in juxtanuclear regions and concentrated at the microtubule organizing center. They are an important sorting station in the endocytic pathway. Recycling to the plasma membrane and to the Golgi occurs in late endosomes. More acidic than early endosomes they are also loaded more slowly in a range of 4 to 30 minutes depending on the cell type. They can be distinguished from lysosome for their enrichment in M6PR.)
SL-0336	Late endosome lumen (The late endosomal comaprtment bounded by the membrane of the late endosome.)
SL-0151	Late endosome membrane (The membrane surrounding the late endosomes.)
SL-0153	Lateral cell membrane (The portion of the plasma membrane at the lateral side of the cell.)
SL-0154	Lipid droplet (The lipid droplet is a dynamic cytoplasmic organelle which consists of an heterogeneous macromolecular assembly of lipids and proteins covered by a unique phospholipid monolayer. Lipid droplets may play a role in lipid metabolism and storage, and they may be involved in the regulation of intracellular trafficking and signal transduction.)
SL-9901	Lipid-anchor (Protein bound to the lipid bilayer of a membrane through a posttranslationally modification by the attachment of at least one lipid or fatty acid, e.g. farnesyl, palmitate and myristate.)
SL-9914	Lumenal side (Protein found mostly on the lumenal side of the membrane.)
SL-0158	Lysosome (The lysosome is a membrane-limited organelle present in all eukaryotic cells, which contains a large number of hydrolytic enzymes that are used for degrading almost any kind of cellular constituent, including entire organelles. The mechanisms responsible for delivering cytoplasmic cargo to the lysosome/vacuole are known collectively as autophagy and play an important role in the maintenance of homeostasis.)
SL-0156	Lysosome lumen (The lumen of a lysosome is the volume enclosed within the lysosomal membrane.)
SL-0157	Lysosome membrane (The membrane surrounding a lysosome.)
SL-0159	Lytic vacuole (The lytic vacuole is a plant specialized vacuole equivalent to animal lysosomes or yeast vacuoles, functioning as compartments for degradation and waste storage.)
SL-0315	M line (In electron micrographs of the sarcomere, the M line appears as a series of parallel electron-dense lines in the central zone of the A band impliing that the M line is needed for the regular packing of the thick filaments. The M line maintains the myosin filaments in a hexagonal lattice.)
SL-0510	Magnetosome (A specialized, membrane-bound bacterial organelle that envelops nanometer-sized crystals of magnetic iron minerals. They form linear chains at midcell along the cellular motility axis.)
SL-0511	Magnetosome lumen (The magnetosome lumen.)
SL-0512	Magnetosome membrane (The magnetosome membrane.)
SL-9913	Matrix side (Protein found mostly on the matrix side of the membrane.)
SL-0161	Melanosome (The melanosome is a melanin-containing organelle found in melanocytes and melanophores. Fish and amphibians possess specialized cells, called melanophores, which contain hundreds of melanin-filled pigment granules, termed melanosomes. The sole function of these cells is pigment aggregation in the center of the cell or dispersion throughout the cytoplasm. This alternative transport of pigment allows the animal to effect color changes important for camouflage and social interactions. Melanophores transport their pigment in response to extracellular cues: neurotransmitters in the case of fish and hormonal stimuli in the case of frogs. In both cases, melanosome dispersion is induced by elevation of intracellular cAMP levels, while aggregation is triggered by depression of cAMP. The regulatory mechanisms downstream of these second-messengers are poorly understood. Mammalian melanocytes also produce melanosomes but, unlike melanophores, pigment in these cells is transported to the cell periphery for subsequent exocytosis to surrounding epithelial cells.)
SL-0338	Melanosome lumen (The melanosomal compartment bounded by the membrane surrounding a melanosome.)
SL-0160	Melanosome membrane (The membrane surrounding a melanosome.)
SL-0162	Membrane (A membrane is a lipid bilayer which surrounds enclosed spaces and compartments. This selectively permeable structure is essential for effective separation of a cell or organelle from its surroundings. Membranes are composed of various types of molecules such as phospholipids, integral membrane proteins, peripheral proteins, glycoproteins, glycolipids, etc. The relative amounts of these components as well as the types of lipids are non-randomly distributed from membrane to membrane as well as between the two leaflets of a membrane.)
SL-0370	Membrane raft (Membrane rafts are small (10-200 nm), heterogeneous, highly dynamic, sterol- and sphingolipid-enriched domains that compartmentalize cellular processes. Small rafts can sometimes be stabilized to form larger platforms through protein-protein and protein-lipid interactions. Multiple types of rafts are likely to exist, based both on their lipid and protein composition.)
SL-0163	microneme (The microneme is an Apicomplexan parasite organelle. Apicomplexa are named for the unique set of morphologically distinct secretory organelles (refered to as the apical complex)- micronemes, rhoptries and dense granules - whose sequential secretion is required for the invasion of host cells. Micronemes are the smallest, they are involved in the early stages of invasion.)
SL-0339	microneme lumen (The micronemal compartment bounded by the membrane of a microneme.)
SL-0164	microneme membrane (The membrane surrounding a microneme.)
SL-0166	Microsome (The microsomes are a heterogenous set of vesicles 20-200nm in diameter and formed from the endoplasmic reticulum when cells are disrupted. The vesicles are isolated by differential centrifugation and are composed of three structural features: rough vesicles, smooth vesicles and ribosomes. Numerous enzyme activities are associated with the microsomal fraction.)
SL-0165	Microsome membrane (The membrane surrounding the microsome.)
SL-0484	microtubule organizing center (The microtubule organizing center (MTOC) is an intracellular structure that can catalyze gamma-tubulin-dependent microtubule nucleation and that can anchor microtubules.)
SL-0293	microvillus (Microvilli are thin cylindrical dynamic cell projections containing a core bundle of actin filaments. They serve a diverse set of functions, such as increasing absorptive surface area in the epithelial brush border, tethering leukocytes to the surface of endothelial cells or participate in sperm-oocyte fusion.)
SL-0294	microvillus membrane (The portion of the cell membrane surrounding a microvillus.)
SL-0469	Midbody (The midbody is the central region of the thin intercellular cytoplasmic bridge formed between daughter cells during cytokinesis. It consists of tightly bundled antiparallel microtubules, which embrace a phase-dense circular structure, called midbody ring. At the final stage of cytokinesis, the intercellular bridge is cleaved, in a process termed abscission, and two daughter cells are formed. Following abscission, the residual midbody structure, known as the midbody remnant or midbody derivative, can have different fates depending on the cell type. It can be either released to the extracellular medium, degraded by autophagy or persists in the cytoplasm, showing asymmetric accumulation in the daughter cells.)
SL-0490	Midbody ring (The midbody ring is the central region of the midbody characterized by a gap in alpha-tubulin staining, although interdigitating microtubules persist through the gap. It is thought that high local protein density masks tubulin epitopes known to be present. The midbody ring serves as a scaffold for a wide variety of structural and regulatory proteins required for completion of cytokinesis.)
SL-0173	Mitochondrion (The mitochondrion is a semiautonomous, self-reproducing organelle that occurs in the cytoplasm of all cells of most, but not all, eukaryotes. Each mitochondrion is surrounded by a double limiting membrane. The inner membrane is highly invaginated, and its projections are called cristae. Mitochondria are the sites of the reactions of oxidative phosphorylation, which result in the formation of ATP. The size and coding capacity of the mitochondrial DNA varies considerably in different organisms, and encodes rRNAs, tRNAs and essential mitochondrial proteins.)
SL-0167	Mitochondrion envelope (The mitochondrial envelope comprises the inner and outer mitochondrial membrane including the intermembrane space.)
SL-0168	Mitochondrion inner membrane (The inner membrane of a mitochondrion is the membrane which separates the mitochondrial matrix from the intermembrane space.)
SL-0169	Mitochondrion intermembrane space (The mitochondrial intermembrane space is the space between inner and outer mitochondrial membrane.)
SL-0170	Mitochondrion matrix (The matrix of a mitochondrion is the mitochondrion internal spaces enclosed by the inner membrane. Several of the steps in cellular respiration occur in the matrix due to its high concentration of enzymes.)
SL-0171	Mitochondrion membrane (The membrane surrounding a mitochondrion. This term is used when it is not known if the protein is found in or associated with the inner or outer mitochondrial membrane.)
SL-0269	mitochondrion nucleoid (The mitochondrial nucleoid is the mitochondrial pseudocompartment formed by the chromatin-dense area. This region, which is functionally equivalent to the eukaryotic nucleus, is not surrounded by a membrane.)
SL-0172	Mitochondrion outer membrane (The outer membrane of a mitochondrion is the mitochondrial membrane facing the cytoplasm.)
SL-0437	Mitosome (The mitosome is an organelle found in "amitochondrial" unicellular organisms which do not have the capability of gaining energy from oxidative phosphorylation. Mitosomes are almost certainly derived from mitochondria, they have a double membrane and most proteins are delivered to them by a targeting sequence. Unlike mitochondria, mitosomes do not contain any DNA. The mitosome functions in iron-sulphur cluster assembly.)
SL-0438	Mitosome envelope (The mitosomal envelope comprises the inner and outer mitosomal membrane including the intermembrane space.)
SL-0439	Mitosome inner membrane (The inner membrane of a mitosome is the membrane which separates the mitosomal matrix from the intermembrane space.)
SL-0440	Mitosome intermembrane space (The mitosomal intermembrane space is the space between inner and outer mitosomal membranes.)
SL-0441	Mitosome matrix (The matrix of a mitosome is the mitosomal internal spaces enclosed by the inner membrane.)
SL-0442	Mitosome membrane (The membrane surrounding a mitosome. This term is used when it is not known if the protein is found in or associated with the inner or outer mitosomal membrane.)
SL-0443	Mitosome outer membrane (The outer membrane of a mitosome is the mitosomal membrane facing the cytoplasm.)
SL-9909	Multi-pass membrane protein (Protein spanning the membrane more than once.)
SL-0174	multivesicular body (The multivesicular bodies are a type of late endosome containing internal vesicles formed following the inward budding of the outer endosomal membrane. The contents of the MVBs are then released into the lysosome lumen. The proteins found in the limiting membrane of MVBs are recycled to other compartments.)
SL-0340	multivesicular body lumen (The multivesicular body compartment bounded by the membrane of the multivesicular bodies.)
SL-0175	multivesicular body membrane (The membrane surrounding the multivesicular bodies.)
SL-0176	Myelin membrane (The myelin membrane is the white matter coating our nerves, enabling them to conduct impulses between the brain and other parts of the body. It consists of a layer of proteins packed between two layers of lipids. This specialized cell membrane is produced by oligodendrocytes in the central nervous system, and Schwann cells in the peripheral nervous system. Myelin sheaths wrap themselves around axons, the threadlike extensions of neurons that make up nerve fibers. Each oligodendrocyte can myelinate several axons. The major function of myelin is to increase the velocity of propagation of nerve impulses.)
SL-0312	myofibril (A myofibril is a long cylindrical organelle found in muscle cells formed by two transverse filament systems: the thick and thin filaments. The thin filament is composed primarily of actin; it is tethered at one end to the Z-disk, and it interdigitates with the thick filaments. The main constituent of the thick filament is myosin; the direction of the myosin heads changes polarity at the M-line, allowing interaction with the thin filaments anchored from the next adjacent Z-disk. A third and a fourth filament complex exist, comprising the giant proteins titin and nebulin.)
SL-0177	Nematocyst (The nematocyst is an organelle found in nematoblast (cnidoblast) cells. When matured, these stinging organelles store toxins and can deliver them when the cnidocil (a short extension of the nematocyst) is stimulated by a prey or another stimulus. These proteins are principally found in anemones and jellyfishes.)
SL-0518	neuron projection (Prolongation or process extending from a nerve cell, such as an axon or a dendrite. Used when speaking of immature or developing neurons, especially of cells in culture, because it can be difficult to tell axons from dendrites before differentiation is complete.)
SL-0526	neuronal dense core vesicle (Dense core vesicle that is part of a neuron. Stores and releases neuropeptides (peptide neurotransmitters) and neurotrophins by exocytosis. Filled with cargo at the Golgi network, they are transported through axons and dendrites to the synapses where the release takes place. They can be found in all parts of neurons, including the soma, dendrites, axonal swellings (varicosities) and synaptic terminals.)
SL-0532	neuronal dense core vesicle membrane (The membrane surrounding a neuronal dense core vesicle.)
SL-0494	nuclear body (Nuclear body is a collective term for several nuclear, extra-nucleolar, non-membrane-bound sub-compartments, including, but not limited to Cajal bodies, Gemini of Cajal bodies (gems), nuclear speckles and PML bodies. Nuclear bodies are visible as distinct spots in the nucleoplasm. They can vary in number and size depending on the cell line and the type of nuclear body.)
SL-0185	nuclear pore complex (The nuclear pore complex (NPC) constitutes the exclusive means of nucleocytoplasmic transport in eukaryotes during interphase. NPCs allow the passive diffusion of ions and small molecules (up to about 20 kDa or 5 nm) and the active, nuclear transport receptor (karyopherin: importin and exportin)-mediated bidirectional transport of macromolecules such as proteins, RNAs, ribonucleoprotein (RNPs), and ribosomal subunits (up to about 10 MDa) across the double-membrane nuclear envelope. NPC components, collectively referred to as nucleoporins (NUPs), can play the role of both NPC structural components and of docking or interaction partners for transiently associated nuclear transport factors. The NPC is composed of at least 30 distinct subunits, shows 8-fold rotational symmetry with specialized structures on the cyto- and nucleoplasmic side and in the nuclear envelope embedded core. The MW varies from about 44-60 MDa in S. cerevisiae to 60-120 MDa in vertebrates, yet the overall architecture is conserved.)
SL-0187	nucleoid (The nucleoid is the prokaryotic pseudocompartment formed by the chromatin-dense area. This region, which is functionally equivalent to the eukaryotic nucleus, is not surrounded by a membrane.)
SL-0188	nucleolus (The nucleolus is a non-membrane bound nuclear compartment found in eukaryotic cells which is the site of ribosome biogenesis. The interphase nucleolus is organized around the tandemly repeated genes for preribosomal RNA (rRNA). It is composed of at least 2 sub-compartments: the dense fibrillar component (DFC, also called pars fibrosa) and the granular component (GC or pars granulosa). The DFC contains newly synthesized preribosomal RNA and a collection of proteins; the GC is made up of nearly completed preribosomal particles destined for the cytoplasm. In most metazoans, but generally not in lower eukaryotes, a third component, the fibrillar center (FC), can be seen. Plant and animal nuclei can contain more than one nucleolus.)
SL-0497	nucleolus fibrillar center (The nucleolus fibrillar center (FC) is a sub-compartment of most metazoan nucleoli. The transcription of ribosomal RNA (rRNA) genes generates 2 structures that are found in all nucleoli: the dense fibrillar component (DFC) and the granular component (GC). The DFC contains newly synthesized preribosomal RNA and a collection of proteins; the GC is made up of nearly completed preribosomal particles destined for the cytoplasm. In most metazoans, but generally not in lower eukaryotes, a third component, the FC, can be seen. The FC is surrounded by the DFC. The zone of transcription from multiple copy rRNA genes is in the border region between these 2 structures.)
SL-0189	Nucleomorph (Nucleomorphs are vestigial endosymbiont found in cryptomonads and chlorachniophytes algae. These organisms respectively retain an enslaved red or green algal nucleus.)
SL-0190	nucleoplasm (The nucleoplasm is a highly viscous liquid contained within the nucleus that surrounds the chromosomes and other subnuclear organelles. A network of fibers known as the nuclear matrix can also be found in the nucleoplasm.)
SL-9915	Nucleoplasmic side (Protein found mostly on the nucleoplasmic side of the membrane.)
SL-0191	Nucleus (The nucleus is the most obvious organelle in any eukaryotic cell. It is a membrane-bound organelle surrounded by double membranes which contains most of the cell's genetic material. It communicates with the surrounding cytosol via numerous nuclear pores.)
SL-0178	Nucleus envelope (The nuclear envelope is a membrane system which surrounds the nucleoplasm of eukaryotic cells. It is composed of the nuclear lamina, nuclear pore complexes and two nuclear membranes. The space between the two membranes is called the nuclear intermembrane space.)
SL-0179	Nucleus inner membrane (The inner membrane of the nucleus is the membrane which separates the nuclear matrix from the intermembrane space. In mammals, the inner nuclear membrane is associated with heterochromatin and the nuclear lamina.)
SL-0184	Nucleus intermembrane space (The nuclear intermembrane space is the space between the inner and outer nuclear membranes.)
SL-0180	Nucleus lamina (The nuclear lamina is a meshwork of intermediate filament proteins called lamins and lamin-binding proteins that are embedded in the inner nuclear membrane.)
SL-0181	Nucleus matrix (The nuclear matrix is a three-dimensional filamentous protein network, found in the nucleoplasm, which provides a structural framework for organising chromatin, while facilitating transcription and replication.)
SL-0182	Nucleus membrane (The membrane surrounding the nucleus. This term is used when it is not known if the protein is found in or associated with the inner or outer nuclear membrane.)
SL-0183	Nucleus outer membrane (The outer membrane of the nucleus is the membrane facing the cytoplasm. In mammals, the outer nuclear membrane is continuous in many places with the rough endoplasmic reticulum and is dotted with ribosomes.)
SL-0186	Nucleus speckle (The nuclear speckles are small subnuclear membraneless organelles or structures, also called the splicing factor (SF) compartments that correspond to nuclear domains located in interchromatin regions of the nucleoplasm of mammalian cells. Protein found in speckles serves as a reservoir of factors that participate in transcription and pre-mRNA processing. Speckles appear, at the immunofluorescence-microscope level, as irregular, punctuate structures, which vary in size and shape. Usually 25-50 speckles are observed per interphase mammalian nucleus. At the electronic-microscope level, they are composed of heterogeneous mixture of electro-dense particles with diameters ranging from 20-25 nm and are called interchromatin granules clusters (IGCs). Speckles are dynamic structures. Both their protein and RNA-protein components can cycle continuously between speckles and other nuclear locations depending on the transcriptional state of the cell. Structures similar to nuclear speckles have been identified in the amphibian oocyte nucleus (called B snurposomes) and in Drosophila melanogaster embryos, but not in yeast.)
SL-0351	organellar chromatophore (The organellar chromatophore is the photosynthetic inclusion found in Paulinella species, which are photosynthetic thecate amoeba. It probably derives from a different endosymbiotic event than that which led to all other plastids. Houses the machinery necessary for photosynthesis and CO(2) fixation and may also be able to make a few amino acids, some fatty acids and a few cofactors. They are surrounded by 2 membranes, between which is found a residual peptidoglycan wall, and contain thylakoids.)
SL-0359	organellar chromatophore inner membrane (The organellar chromatophore inner membrane is the membrane which separates the chromatophore stroma from the intermembrane space. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba.)
SL-0360	organellar chromatophore intermembrane space (The intermembrane space between the inner and the outer organellar chromatophore membranes. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba.)
SL-0352	organellar chromatophore membrane (One of the membranes of an organellar chromatophore. This term is used when it is not known with which membrane (outer membrane, inner membrane or thylakoid) a protein is associated. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba.)
SL-0361	organellar chromatophore outer membrane (The organellar chromatophore outer membrane is the organellar chromatophore membrane facing the cytoplasm. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba.)
SL-0353	organellar chromatophore stroma (The internal space enclosed by the organellar chromatophore double membrane but excluding the thylakoid space. This space, filled with a colorless hydrophilic matrix, contains DNA, ribosomes and some temporary products of photosynthesis; other biosynthetic functions that could also occur there include amino acid, fatty acid and some cofactor biosynthesis. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba.)
SL-0354	organellar chromatophore thylakoid (The thylakoid of an organellar chromatophore is an internal system of interconnected membranes that carry the complexes for the light reactions of photosynthesis. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba.)
SL-0355	organellar chromatophore thylakoid lumen (The organellar chromatophore thylakoid lumen is the compartment bounded by the thylakoid membrane. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba.)
SL-0356	organellar chromatophore thylakoid membrane (The organellar chromatophore thylakoid membrane is an internal system of interconnected membranes that house the complexes which carry out the light reactions of photosynthesis. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba.)
SL-0192	paranodal septate junction (The paranodal septate junction (PSJ) in vertebrate species is an occluding complex which occurs between neurons and the glial cells that myelinate them, the oligodendrocytes and the Schwann cells. Each glial cell wraps around and contacts the neuron multiple times in a spiral pattern to form the paranodal loops. The paranodal loops tightly adhere to the axon through a continuous spiral of axo-glial junctions that resemble invertebrate septate junctions (SJs). The paranodal loops are a spiraled cytoplasmic channel that is contiguous with the perikaryon of the myelin forming cell and thus can serve as a conduit for transmitting axonally induced signals that could regulate glial gene transcription. These junctions also form a physical barrier that prevents diffusion of nodal sodium channels and juxtaparanodal potassium channels. Axo-glial paranodal junctions, therefore, share adhesion, diffusion barrier and putative intercellular communication functions with invertebrate SJs.)
SL-0194	Parasitophorous vacuole (The parasitophorous vacuole is a vacuole found in the host cells where most apicomplexan parasites reside and develop. During host cell invasion, the apicomplexan parasites initiate the formation of a membrane (the parasitophorous vacuolar membrane), which surrounds the intracellular parasite.)
SL-0341	Parasitophorous vacuole lumen (The parasitophorous vacuole compartment bounded by the membrane of the parasitophorous vacuole.)
SL-0193	Parasitophorous vacuole membrane (The membrane surrounding the parasitophorous vacuole.)
SL-0230	P-body (P-bodies are dynamic non-membrane bound cytoplasmic structures. These discrete foci function in mRNA decay (decapping and breakdown), RNA-mediated gene silencing (microRNA and siRNA-based gene silencing), mRNA surveillance (or quality control) and translational control. In addition to being sites of mRNA degradation, P-bodies can temporarily sequester mRNAs away from the translation machinery. P-bodies are present in unstressed cells, but are further induced in response to various stresses.)
SL-9900	Peptidoglycan-anchor (Surface protein of a Gram-positive bacteria anchored to the cell wall envelope by a transpeptidation mechanism which requires a C-terminal sorting signal with a conserved LPXTG motif. An amide bond is created between the carboxyl-group of the conserved threonine and the amino-group of peptidoglycan cross-bridges.)
SL-0195	peribacteroid membrane (Symbiosis leads to the formation of a new compartment in the plant cell when bacteria enter the plant cell by endocytosis, the symbiosome. This compartment harbours the bacteroids surrounded by a peribacteroid membrane (PMB) originating from the plant plasma membrane. The space between this membrane and the bacteroid membrane is called the peribacteroid space.)
SL-0196	peribacteroid space (Symbiosis lead to the formation of a new compartment in the plant cell when bacteria enter the plant cell by endocytosis. This compartment harbours the bacteroids surrounded by a peribacteroid membrane (PMB) originating from the plant plasma membrane. The space between this membrane and the bacteroid membrane is called the peribacteroid space.)
SL-0197	Perikaryon (The perikaryon is the cell body of a neuron.)
SL-0198	perinuclear region (The perinuclear region is the cytoplasmic region just around the nucleus.)
SL-0199	perinuclear theca (The perinuclear theca is a cytoskeletal structure that covers the nucleus of mammalian spermatozoa except for a narrow zone around the insertion of the tail. It shows two distinct regions, a subacrosomal layer or perforatorium and, continuing caudally beyond the acrosomic system, the postacrosomal sheath.)
SL-9903	Peripheral membrane protein (Protein that is physically associated with a membrane, via interactions with lipid headgroups at the membrane surface or with another membrane protein. Peripheral membrane proteins are typically bound to the membrane surface, but may dip slightly into the lipid bilayer. Peripheral membrane protein.)
SL-0200	Periplasm (The periplasm is the space between the inner and outer membrane in Gram-negative bacteria. In Gram-positive bacteria a smaller periplasmic space is found between the inner membrane and the peptidoglycan layer. Also used for the intermembrane spaces of fungi and organelles.)
SL-0201	Periplasmic flagellum (Spirochetes have a flagellum that resides inside the cell within the periplasmic space. The number of flagella varies from species to species. The rotation of these structures results in specific movements of the cell body, which in turn enable the locomotion of the cell. In particular they impart spirochetes the ability to propel themselves through viscous media that would inhibit the rotation of external flagellar filaments.)
SL-9916	Periplasmic side (Protein found mostly on the periplasmic side of the membrane.)
SL-0367	perispore (Protein found in the perispore. The perispore corresponds to the outer surface layer of mature bacterial spores and eukaryotic spores. The perispore, also called perine or exosporium, represents the primary contact surface between the spore and environment/host and is a site of spore antigens.)
SL-0204	Peroxisome (The peroxisome is a small eukaryotic organelle limited by a single membrane, specialized for carrying out oxidative reactions. Contains mainly peroxidases, several other oxidases and catalase. The catalase regulates the contents of the produced toxic hydrogen peroxide thus protecting the cell. Beta-oxidation of fatty acids is another major function of peroxisomes. In plants and fungi this degradation occurs only in this cellular compartment.)
SL-0202	Peroxisome matrix (The matrix of a peroxisome is the area enclosed by the peroxisomal membrane.)
SL-0203	Peroxisome membrane (The membrane surrounding a peroxysome.)
SL-0473	phagocytic cup (Cup-shaped invaginations of the cell membrane that subsequently close at their distal margins to form phagosomes during phagocytosis. By progression of its rim along the particle surface, this phagocytic cup envelops and eventually encloses the particle by separation of the phagosome membrane from the cell membrane. Filamentous actin accumulates between the outer and inner leaflet of the cup membrane and is most strongly enriched at the rim of the cup, the site of its protrusion.)
SL-0206	phagosome (The phagosome is a phagocytic cell-specific compartment. These large endocytic membrane-bound vesicles form upon ingestion by the cell of extracellular materials.)
SL-0342	phagosome lumen (The phagosomal compartment bounded by the membrane a phagosome.)
SL-0205	phagosome membrane (The membrane surrounding a phagosome.)
SL-0457	Photoreceptor inner segment (The inner segment of a vertebrate photoreceptor containing mitochondria, ribosomes and membranes where opsin molecules are assembled and passed to be part of the outer segment discs.)
SL-0514	Photoreceptor inner segment membrane (The membrane surrounding the inner segment of a vertebrate photoreceptor. SL Photoreceptor inner segment membrane. HI Membrane. HP Endomembrane system. HP .)
SL-0458	photoreceptor outer segment (The outer segment of a vertebrate photoreceptor that contains discs of photoreceptive membranes.)
SL-0513	Photoreceptor outer segment membrane (The membrane surrounding the outer segment of a vertebrate photoreceptor.)
SL-0207	phragmoplast (The phragmoplast is a plant cell specific structure that forms during late cytokinesis. This complex assembly of microtubules, actin filaments and associated molecules acts as a framework for cell plate assembly and subsequent formation of the future cell wall separating the two daughter cells.)
SL-0208	plasmodesma (The plasmodesma (plural plasmodesmata) is a plasma membrane-lined channel that crosses the cell wall between two adjacent plant cells and which allows a cytoplasmic exchange between the cells. It provides passage of ions and small molecules, but also of macromolecules such as RNA or proteins. Plasmodesmata are sheathed by a plasma membrane that is simply an extension of the cell membrane of the adjoining cells. Most plasmodesmata have a narrow cylindrical desmotubule at the center that is derived from the ER and appears to be continuous with the ER of both cells.)
SL-0209	Plastid (The plastid is a semi-autonomous, self-reproducing organelle. Plastids are remnants of a photosynthetic organism that was engulfed by the host, although not all are now photosynthetic. Plastid genomes encode genes for rRNAs, tRNAs and between about 28 and 150 proteins. Plastids can be categorized in 4 main groups: chloroplasts, cyanelles, apicoplasts and non-photosynthetic. The latter are found is some land plants (Epifagus virginiana), chlorophyte algae (Prototheca wickerhamii) and euglenoids (Astasis longa), which do not encode the genes necessary for photosynthesis and so are not photosynthetic but still contain a plastid. Non-photosynthetic plastids probably do not contain thylakoids.)
SL-0210	Plastid envelope (The envelope of a plastid comprises the inner and outer plastid membrane including the intermembrane space.)
SL-0211	Plastid inner membrane (The inner membrane of a plastid separates the plastid stroma from the intermembrane space.)
SL-0212	Plastid intermembrane space (The plastid intermembrane space is the space between the plastid inner and outer membranes.)
SL-0213	Plastid membrane (The membrane surrounding or within a plastid. Also used when it is not clear in which plastid membrane (outer membrane, inner membrane or thylakoid) a protein is found.)
SL-0140	plastid nucleoid (The plastid nucleoid is the plastidic pseudocompartment formed by the chromatin-dense area. This region, which is functionally equivalent to the eukaryotic nucleus, is not surrounded by a membrane.)
SL-0214	Plastid outer membrane (The outer membrane of a plastid is the membrane facing the cytoplasm.)
SL-0215	Plastid stroma (The stroma of a plastid is the internal space enclosed by the plastid double membrane but excluding the thylakoid space. This space, filled with a colorless hydrophilic matrix.)
SL-0278	Plastid thylakoid (The thylakoid of a plastid is an internal system of interconnected membranes found within a plastid.)
SL-0309	Plastid thylakoid lumen (The plastid thylakoid lumen is the plastid compartment bounded by the thylakoid membranes.)
SL-0216	Plastid thylakoid membrane (The thylakoid membranes of a plastid is an internal system of interconnected membranes found in a plastid.)
SL-0217	plastoglobule (A plastoglobule is a conspicuous lipid-containing structure in the chloroplast stroma thought to serve as lipid reservoirs for thylakoid membranes.)
SL-0465	PML body (The PML bodies are dynamic nuclear protein aggregates interspersed between chromatin. These punctate nuclear structures are call PML bodies because the PML gene is essential for their formation. These discrete nuclear foci, 0.2-1.0 micrometer wide, are present in most mammalian cell nuclei and typically number 1 to 30 bodies per nucleus, depending on the cell type, cell-cycle phase and differentiation stage. Recent evidence implies that, although they appear to be uniform, PML-NBs are structurally and functionally heterogeneous and are dynamic structures.)
SL-0295	podosome (The podosome is a ring-like cell protrusion which mediates cell-extracellular matrix interactions. Podosomes are composed of an actin-bundle core, flanked by a ring containing adhesion proteins connected to the core via dome-like radial actin fibers. Podosomes are rich in actin filaments, matrix-degrading enzymes, focal adhesion molecules and molecules involved in vesicle trafficking. These structures protrudes into the extracellular matrix and are essential for invasion and metastasis. Classical podosomes are highly dynamic structures formed by cell types of monocytic origin, such as macrophages, dendritic cells, and osteoclasts.)
SL-0296	podosome membrane (The portion of the cell membrane surrounding a podosome.)
SL-0371	pollen coat (The relatively impermeable, lipidic layer which surrounds the outer exine layer of a pollen grain.)
SL-0218	porosome (The porosome is an actin-regulated dynamic structure at the cell membrane, where membrane-bound secretory vesicles dock and fuse to release their contents.)
SL-0515	postsynapse (The receiving part of a synapse which contains the neurotransmitter-receptor scaffold and signaling machinery to respond to signals from the presynaptic cell.)
SL-0219	postsynaptic cell membrane (In a chemical synapse, specialized area of the membrane that receives a signal (binds neurotransmitter) from the presynaptic cell and responds via depolarization or hyperpolarization. The postsynaptic membrane is separated from the presynaptic membrane by the synaptic cleft.)
SL-0297	postsynaptic density (The postsynaptic density is a network of proteins within and adjacent to the postsynaptic membrane, consisting of anchoring and scaffolding molecules, signaling enzymes and cytoskeletal components that spatially and functionally organize the neurotransmitter receptors at the synapse. In asymmetric synapses, the postsynaptic density is a thick electron dense network but in symmetric synapses this structure is thinner and not electron dense.)
SL-0520	postsynaptic density membrane (The membrane component of the postsynaptic specialization. Part of the postsynaptic membrane attached to the postsynaptic density in which the population of neurotransmitter receptors involved in synaptic transmission are concentrated and organized.)
SL-0523	Postsynaptic early endosome (An early endosome of the postsynapse. It acts as the major sorting station on the endocytic pathway, targeting neurotransmitter receptors for degredation or recycling.)
SL-0534	Postsynaptic early endosome membrane (The membrane surrounding a postsynaptic early endosome)
SL-0528	postsynaptic endocytic zone (Stably positioned sites of clathrin adjacent to the postsynaptic density (PSD). The physical link with the PSD ensures localized endocytosis and recycling by recapturing and maintaining a proximate pool of cycling postsynaptic receptors.)
SL-0522	Postsynaptic endosome (An endosomal compartment that is part of the postsynapse. The endosomal pathway in postsynapses and dendrites is essential for membrane receptor trafficking and proper synaptic function and plasticity. Only early and recycling endosomes are typically present in the postsynapse.)
SL-0524	Postsynaptic recycling endosome (A recycling endosome of the postsynapse. It is involved in recycling of neurotransmitter receptors to the postsynaptic membrane and serves as intracellular reserve pools of neurotransmitter receptors. In some cases at least, this recycling is activated by postsynaptic signalling and so can play a role in long term potentiation.)
SL-0533	Postsynaptic recycling endosome membrane (The membrane surrounding a postsynaptic recycling endosome)
SL-0220	Preautophagosomal structure (The pre-autophagosomal structure is the potential site of organization for autophagosome formation located near the vacuole.)
SL-0221	Preautophagosomal structure membrane (The membrane surrounding the pre-autophagosomal structure.)
SL-0516	presynapse (In the synapse, the specialized axon's terminal end of the presynaptic cell that contains the specialized apparatus necessary to release neurotransmitters to the synaptic cleft.)
SL-0519	presynaptic active zone (The active zone is the region that lies at the interface between the presynaptic terminal and the synaptic cleft and mediates neurotransmitter release. Consists of an electron dense protein network called the cytomatrix at the active zone (CAZ) that is tightly anchored to the presynaptic membrane, and precisely aligned with post-synaptic receptors. CAZ docks and fuses synaptic vesicles, recruits voltage-gated Ca(2+) channels to the presynaptic membrane to allow fast synchronous excitation/release coupling and mediates short- and long-term presynaptic plasticity.)
SL-0527	presynaptic active zone membrane (The membrane portion of the presynaptic active zone that allows presynaptic vesicles to dock, fuse, and, ultimately, release neurotransmitter into the synaptic cleft.)
SL-0222	presynaptic cell membrane (In a chemical synapse, the presynaptic membrane is the cell membrane of an axon terminal that faces the receiving cell. The postsynaptic membrane is separated from the presynaptic membrane by the synaptic cleft.)
SL-0529	presynaptic endocytic zone (Region of the presynaptic membrane and underlying cytoplasm that surrounds the active zone and where synaptic vesicles are endocytosed and recycled following release.)
SL-0525	Presynaptic endosome (An endosome present in the presynapse that fuses with endocytic vesicles arising in the presynaptic endocytic zone. Presynaptic endosomes are involved on synaptic vesicle regeneration in GABAergic synapses at least, even if different modes of synaptic vesicles recycling exist depending on the type of synapse.)
SL-0223	Prevacuolar compartment (The prevacuolar compartment is an endocytic multivesiculate compartment involved in Golgi-vacuole trafficking.)
SL-0343	Prevacuolar compartment lumen (The PVC compartment bounded by the membrane of the PVC.)
SL-0224	Prevacuolar compartment membrane (The membrane surrounding the prevacuolar compartment.)
SL-0225	primary cell wall (Trimary cell wall is the first-formed wall layer of still growing plant cells (at least potentially). This wall is part of the apoplast which itself is largely self-contiguous and contains everything that is located between the plasma membrane and the cuticle. Primary walls are composed predominantly of polysaccharides, smaller proportions of glycoproteins and, in some specialized cell types, various noncarbohydrate substances such as lignin, suberin, cutin, cutan or silica. It is strong but usually thin, flexible, and capable of both plastic and elastic extension. It governs the rate and direction of cell expansion, and thus the ultimate size and shape of the cell.)
SL-0226	prolamellar body (The prolamellar body is a paracrystalline lattice found in the plastids of etiolated plants (etioplasts). Upon greening it gives rise to thylakoids.)
SL-0369	Prospore (The prospore or immature spore is formed during sporulation by the engulfment of the post-meiotic nuclei by the prospore double membrane. These prospores are then maturated into spores with the synthesis of the spore wall.)
SL-0368	Prospore membrane (The prospore membrane is a double membrane which forms at the spindle pole body outer plaque during the second meiotic division of the sporulation process. The prospore membrane grows larger and finally engulfs the post-meiotic nuclei to form immature spores called prospores. The de novo synthesis of the spore wall occurs in the prospore intermembrane space and leads to mature spores.)
SL-0228	Protein storage vacuole (The protein storage vacuole (PSV) is a specialized vacuole where storage proteins accumulate. These act as a source of amino acids for various SYnthetic activities.)
SL-0344	Protein storage vacuole lumen (The protein storage vacuolar compartment bounded by the membrane of the protein storage vacuole.)
SL-0227	Protein storage vacuole membrane (The membrane surrounding a protein storage vacuole.)
SL-0229	Protoplasm (The protoplasm is the viscid, translucent, polyphasic colloid with water as the continuous phase that makes up the essential material of all plant and animal cells. It is composed mainly of nucleic acids, proteins, lipids, carbohydrates, and inorganic salts. The protoplasm surrounding the nucleus is known as the cytoplasm and that composing the nucleus is the nucleoplasm.)
SL-0298	pseudopodium (The pseudopodium is a thick knobby cell protrusion. Pseudopodia are produced by polymerization of extensive dendritic meshwork of actin filaments along broad sectors of the cell surface. These temporary irregular and dynamic protrusion or retractile processes of a cell, are associated with ameboid movement (crawling). Pseudopodium, or "false foot", mostly used for motile protozoans is comparable to the 'lamellipodium' in vertebrate cells.)
SL-0299	pseudopodium membrane (The portion of the cell membrane surrounding a pseudopodium.)
SL-0471	pseudopodium tip (The end of the pseudopodium distal to the body of the cell.)
SL-0232	Recycling endosome (The recycling endosome is a membrane network composed of narrow diameters tubules which concentrate in the vicinity of the microtubule organizing center. Recycling receptors after release of their ligands accumulate in those membranes which are devoid of fluid markers. Recycling endosomes may be an intermediate station for receptors before recycling back to the cell surface.)
SL-0345	Recycling endosome lumen (The recycling endosomal compartment bounded by the membrane of the recycling endosome.)
SL-0231	Recycling endosome membrane (The membrane surrounding the recycling endosomes.)
SL-0233	rhoptry (The rhoptry is an Apicomplexan parasite organelle. Apicomplexa are named for the unique set of morphologically distinct secretory organelles (refered to as the apical complex)- micronemes, rhoptries and dense granules - whose sequential secretion is required for the invasion of host cells. Rhoptries are twin, membrane-bound, pear-shaped organelles that secrete proteins through their elongated necks at the apical tip of the parasite.)
SL-0346	rhoptry lumen (The rhoptry compartment bounded by the membrane of a rhoptry.)
SL-0234	rhoptry membrane (The membrane surrounding a rhoptry.)
SL-0235	Rough endoplasmic reticulum (The rough endoplasmic reticulum (RER) is the portion of the ER which is covered with ribosomes.)
SL-0236	Rough endoplasmic reticulum lumen (The rough endoplasmic reticulum lumen is the area enclosed by the rough endoplasmic reticulum membrane.)
SL-0237	Rough endoplasmic reticulum membrane (The membrane surrounding the rough endoplasmic reticulum.)
SL-0300	ruffle (A ruffle is a cell protrusion at the leading edge of a crawling cell. Ruffles are supported by a microfilament meshwork.)
SL-0301	ruffle membrane (The portion of the cell membrane surrounding a ruffle.)
SL-0238	sarcolemma (The sarcolemma is a specialized membrane which surrounds striated muscle fiber cells. It consists of a lipid bilayer typical of a plasma membrane and a thin outer coat of polysaccharide material, called glycocalyx, that contacts the basement membrane and allows the cell to anchor into the tissues that build and support muscle fibers.)
SL-0313	sarcomere (The sarcomere represents the basal contractile unit of striated muscles. A single myofibril is composed of these short structural units arranged end to end, which contract due to the relative sliding of thick (myosin) over thin (actin) filaments. The mammalian sarcomere is ~ 2 mm in length, and can shorten to ~ 70% of its original length during contraction. Structural features of the sarcomere include bundles of parallel thick and thin filaments assembled by two transverse structures, the Z lines and M lines. The Z lines and the M lines are connected by transverse filaments to the sarcolemma or to the neighboring myofibrils. Sarcomeres give to skeletal and cardiac muscles their striated appearance with I bands surrounding the Z lines, followed by A bands. The A bands contain a paler region called the H zone and in the middle the M line.)
SL-0311	sarcoplasm (The sarcoplasm is the cytoplasm of a muscle fiber or muscle cell or myofiber.)
SL-0239	Sarcoplasmic reticulum (The sarcoplasmic reticulum (SR) is a highly specialized form of the smooth endoplasmic reticulum which is dedicated to the regulation of intracellular calcium homeostasis. The SR can be subdivided in at least two well-characterized regions: the terminal cisternae, where the calcium ions are released, and the longitudinal tubules specialized in the uptake of the calcium ions.)
SL-0240	Sarcoplasmic reticulum lumen (The lumen of the sarcoplasmic reticulum is the area enclosed by the sarcoplasmic reticulum membrane.)
SL-0241	Sarcoplasmic reticulum membrane (The membrane surrounding the sarcoplasmic reticulum (SR).)
SL-0242	secondary cell wall (In some plants, and cell types after a maximum size or point in development has been reached, a secondary wall, often layered, is constructed below the primary wall. Unlike the primary wall, it losts plasticity and is made usually of cellulose, hemicellulose and lignin.)
SL-0243	Secreted (Protein located outside the cell membrane(s).)
SL-0244	secretory vesicle (The secretory vesicle is a vesicle that mediates the vesicular transport of cargo - e.g. hormones or neurotransmitters - from an organelle to specific sites at the cell membrane, where it docks and fuses to release its content. It has been demonstrated that membrane-bound secretory vesicles dock and fuse at porosomes, which are specialized supramolecular structures at the cell membrane.)
SL-0347	secretory vesicle lumen (The secretory vesicle compartment bounded by the membrane of the secretory vesicle.)
SL-0245	secretory vesicle membrane (The membrane surrounding secretory vesicles.)
SL-0246	septate junction (The septate junction (SJ) in invertebrates is an occluding complex located basolateral to the adherens junction which have regularly spaced septa bridging a circa 15-nm intercellular space. SJs form the paracellular barrier that regulates passage of solutes through the spaces between adjacent cells in an epithelium for proper nutrient absorption or secretion.)
SL-9904	Single-pass membrane protein (Protein spanning the membrane once.)
SL-9905	Single-pass type I membrane protein (Protein spanning the membrane once, with its N-terminus on the extracellular side of the membrane and removal of its signal sequence.)
SL-9906	Single-pass type II membrane protein (Protein spanning the membrane once, with its N-terminus on the cytoplasmic side of the membrane. The transmembrane domain is located close to the N-terminus and it functions as an anchor.)
SL-9907	Single-pass type III membrane protein (Protein spanning the membrane once, with its N-terminus on the extracellular side of the membrane and no signal sequence.)
SL-9908	Single-pass type IV membrane protein (Protein spanning the membrane once, with its N-terminus on the cytoplasmic side of the membrane. The transmembrane domain is located close to the C-terminus and it functions as an anchor.)
SL-0262	S-layer (The S-layer is a paracrystalline protein thin layer attached to the outermost portion of the cell wall. Found in some bacteria and common in archaea where it can constitute the only cell wall structure outside the plasma membrane. In Gram-negative bacteria, the S-layer is directly attached to the outer membrane. In Gram-positive bacteria, the S-layer is attached to the peptidoglycan layer. The S-layer may protect the cell from aggressions such as phagocytosis, harmful enzymes, etc. It also allows bacteria to adhere to host cells or other environmental surfaces and to maintain shape and envelope rigidity.)
SL-0247	slime layer (The slime layer is an easily removed, diffuse, unorganized layer of extracellular material which surrounds the bacterial cell. It is usually composed of polysaccharides and it may serve to trap nutrients, to aid in cell motility, to bind cells together or to adhere to smooth surfaces. Slime layers are a more-diffuse glycocalyx than capsules.)
SL-0248	Smooth endoplasmic reticulum (The smooth endoplasmic reticulum (SER) is the portion of the ER which is free of ribosomes.)
SL-0249	Smooth endoplasmic reticulum lumen (The smooth endoplasmic reticulum lumen is the area enclosed by the smooth endoplasmic reticulum membrane.)
SL-0250	Smooth endoplasmic reticulum membrane (The membrane surrounding the smooth endoplasmic reticulum.)
SL-0251	spindle (The spindle is a specialized microtubule structure designed to attach and capture chromosomes in order to partition them evenly to each daughter cells.)
SL-0448	spindle pole (Either of the ends of a spindle, a specialized microtubule structure designed to attach and capture chromosomes in order to partition them evenly to each daughter cells.)
SL-0252	spindle pole body (The spindle pole body is the microtubule organizing center (MTOC) in fungi, functionally equivalent to the animal cell centrosome. The SPB is responsible for the nucleation and organisation of microtubules. This may include the spindle microtubules required for chromosome segregation in mitosis and meiosis as well as the cytoplasmic interphase microtubules.)
SL-0530	spine apparatus (Specialized form of endoplasmic reticulum found in a subpopulation of dendritic spines in central neurons consisting of two or more closely apposed lamellae with interspersed electron dense material.)
SL-0539	Spore (Spores are hardy unicellular units used by various bacteria, fungi, plants and protozoa to allow them to remain dormant during long periods of time and under often unfavorable conditions.)
SL-0366	Spore coat (Protein found in the spore coat. The spore coat is the thick layer found beneath the perispore of some eukaryotic spores and bacterial mature spores. It is made up of highly cross-linked keratin and layers of specific proteins. The coat is composed of several electron-dense and lamella-like layers, differing between species.)
SL-0253	Spore core (Protein found in the spore core. The core also called spore matrix is the central part of the spore and contains normal cell structures, such as DNA, proteins and ribosomes, but is metabolically inactive.)
SL-0364	Spore cortex (Protein found in the spore cortex. The spore cortex is a loosely cross-linked peptidoglycan layer localized between the spore core and the outer membrane or cortex membrane of bacterial mature spores. The cortex maintains heat resistance and dormancy.)
SL-0363	Spore membrane (Protein associated with the membrane that surrounds the center or core of a spore, often called spore inner membrane in bacterial spores.)
SL-0365	Spore outer membrane (Protein associated with the spore outer membrane. The outer membrane, also called the cortex membrane, is a membrane localized between the cortex and the inner layer of the coat of bacterial mature spores.)
SL-0436	Spore polar tube (The polar tube is a highly specialised structure unique to Microsporidia and required for host cell invasion. In the spore, the polar tube is connected at the anterior end, and then coils around the sporoplasm. Upon appropriate environmental stimulation, the polar tube rapidly discharges out of the spore, pierces a cell membrane and serves as a conduit for sporoplasm passage into the new host cell.)
SL-0254	Spore wall (Protein found in the spore wall. The spore wall is the main element of the spore's resistance to environmental stress. It is usually composed of several layers of different sugar polymers like mannans and glucans which are associated to glycoproteins. The composition, structure and number of layers are very different between bacteria, plants, protozoans or fungi.)
SL-0302	stereocilium (The stereocilium is a finger-like projection forming the hair bundle on the apical surface of sensory hair cells in the cochlea. Stereocilia stiffness and function depend on the several hundreds of uniformly polarized and tightly cross-linked actin filaments. Stereocilia cytoskeleton shows continuous turnover with actin filament assembly occuring at the stereocilium tip and its disassembly at the base so that stereocilium length is maintained in a dynamic steady-state. This staircase-like bundle of stereocilia is responsible for mechanosensation and ultimately the perception of sound.)
SL-0303	stereocilium membrane (The stereocilium membrane is the portion of the cell membrane surrounding a stereocilium.)
SL-0501	stress fiber (Stress fibers are contractile actomyosin bundles found in non-muscle cells, in eukaryotes, mostly in animals. They are composed of bundles of 10 to 30 actin filaments (microfilaments), crosslinked by alpha-actinin, and non-muscle myosin. They are often anchored to focal adhesions, that connect the extracellular matrix to the actin cytoskeleton. Stress fibers play an essential role in cell contractility, governing cell morphology, adhesion, and migration. In non-motile cells, stress fibers are usually thick and relatively stable. By contrast, highly motile cells typically contain fewer, thinner and more dynamic stress fibers. Stress fibers can be divided into at least 4 different categories : dorsal and ventral stress fibers, transverse arcs and the perinuclear actin cap.)
SL-0496	Stress granule (Stress granules are dense non-membrane bound aggregations in the cytosol composed of proteins and RNAs that appear when the cell is under stress. The aggregates are mostly composed of stalled translation initiation complexes. They are 100-200 nm in size. Stress granules can also precipitate the formation of toxic protein aggregates such as those seen during the progression of certain types of neurological disease.)
SL-9917	Stromal side (Protein found mostly on the stromal side of the membrane.)
SL-0255	surface film (The film of pulmonary surfactants which cover the alveolar surface of the mammalian lung. These surfactants are composed of 90% phospholipids and 10% proteins.)
SL-0256	Symbiosome (Symbiosis lead to the formation of a new compartment in the plant cell when bacteria enter the plant cell by endocytosis, the symbiosome. This compartment harbours the bacteroids surrounded by a peribacteroid membrane (PMB) originating from the plant plasma membrane. The space between this membrane and the bacteroid membrane is called the peribacteroid space.)
SL-0257	Symplast (The symplast is a highly ordered and connected space within plants formed by the cytoplasms of individual cells connected by plasmodesmata. The symplast is held in place by a rigid framework, the apoplast.)
SL-0258	synapse (Synapses are the communicating cell-cell junctions that allow signals to pass from a nerve cell to a target cell. In a chemical synapse, the signal is carried by a neurotransmitter which diffuses across a narrow synaptic cleft and activates a receptor on the postsynaptic membrane of the target cell. The target may be a dendrite, cell body, neuronal axon, a specialized region of a muscle or a secretory cell. In an electrical synapse, a direct connection is made between the cytoplasms of two cells via gap junctions.)
SL-0531	synaptic cell membrane (A specialized area of membrane on either the presynaptic or the postsynaptic side of a synapse, the junction between a nerve fiber of one neuron and another neuron or muscle fiber or glial cell.)
SL-0517	synaptic cleft (The narrow space between the presynaptic and postsynaptic membranes into which neurotransmitters are released by synaptic vesicles through exocytosis and diffuse to activate receptors on post-synaptic membrane.)
SL-0259	synaptic vesicle (The synaptic vesicles mediate the exocytosis of neurotransmitters and subsequent re-uptake by endocytosis of vesicular components. Re-uptake is a crucial element in the maintenance of synaptic transmission in the nervous system.)
SL-0348	synaptic vesicle lumen (The synaptic vesicle compartment bounded by the membrane of a synaptic vesicle.)
SL-0260	synaptic vesicle membrane (The membrane surrounding a synaptic vesicle.)
SL-0261	synaptosome (Synaptosomes are the pinched-off nerve endings and their contents of vesicles and cytoplasm together with the attached subsynaptic area of the membrane of the postsynaptic cell. They are largely artificial structures produced by fractionation after selective centrifugation of nervous tissue homogenates.)
SL-0487	Target cell (A cell including the cell membrane and any external encapsulating of another cell. This term is used to describe a toxin located in the structures such as the cell wall and cell envelope that is the target.)
SL-0486	target cell cytoplasm (The contents of a target cell within the plasma membrane and which, in eukaryotic cells, surrounds the host nucleus. This term is used to describe a toxin located in the cytoplasm of a target cell.)
SL-0451	Target cell membrane (The target cell membrane is the selectively permeable membrane which separates the target cell cytoplasm from its surroundings. This term is used to describe a toxin located to the cell membrane of a target cell.)
SL-0452	target membrane (A target membrane is a lipid bilayer which surrounds target cell enclosed spaces and compartments. This selectively permeable structure is essential for effective separation of a target cell or target cell organelle from its surroundings. This term is used to describe a toxin located to a membrane of a target cell.)
SL-0263	Tegument (The tegument of schistosomes is an outer-surface covering blood-dwelling flatworms. This unique structure consists of a double phospholipid bilayer (also known as the heptalaminar outer-surface structure) that ovelay a syncytium of fused cells surrounding the entire worm. These outer-tegumental membranes form many surface pits that substantially increase the surface area of the schistosome. The underlying syncytial-matrix contains some mitochondria, many vesicular structures and an extensive cytoskeleton. A basal lamina separates the syncytium from a layer of muscle cells. Nuclei and ribosomes are located in cytons, which are located underneath the muscle layer and connected by microtubule-lined cytoplasmic connections.)
SL-0264	Tegument membrane (The membrane suroounding the tegument of schistosomes.)
SL-0276	telomere (The telomere is a nucleoprotein structure comprising the terminal section of a eukaryotic chromosome. It has a specialized structure which is replicated by a special process, thereby counteracting the tendency of a chromosome to be shortened during each round of replication.)
SL-0450	Thylakoid (The thylakoid is a membranous cellular structure containing the photosynthetic pigments, reaction centers and electron-transport chain. In chloroplast, thylakoids stack up to form the grana or stay as single cisternae and interconnect the grana. Thylakoid, where photosynthesis occurs, are found in chloroplasts, cyanelles and in photosynthetic bacteria where they are the extensive invaginations of the plasma membrane.)
SL-0265	tight junction (The tight junction (TJ) is a dynamic, multifunctional complex which, together with adherens junctions and desmosomes, maintains the integrity of the epithelial cell layer(s) that protects multicellular organisms. TJ is located at the apical-most portion of the intercellular junction. It separates the apical and basolateral compartments of epithelia (preventing the lateral diffusion of lipids and proteins between the apical and basolateral domains of plasma membrane) and plays a key role in limiting paracellular permeability to ions and solutes in a charge and size selective manner. TJs appear as multiple strands of fibrils forming a continuous circumferential seal around cells.)
SL-0266	trans-Golgi network (The trans-Golgi network is a highly dynamic series of interconnected tubules and vesicles at the trans face of the Golgi stack. The trans-Golgi network functions in the processing and sorting of glycoproteins and glycolipids at the interface of the biosynthetic and endosomal pathways. The generation and maintenance of apical and basolateral membranes rely on sorting events that occur in the TGN.)
SL-0267	trans-Golgi network membrane (The membrane surrounding the trans-Golgi network.)
SL-0268	Trichocyst (The trichocyst is an architecturally complex secretory granule having a highly constrained shape docked at specialized cortical sites in Paramecium and other ciliates. Each cell bears about 1'000 trichocysts, which are supposed to be defensive organelles against predators. Trichocyst consists of a spindle-shaped body bearing at its wide end a tip often compared to an inverted golf tee. An external stimulus can trigger massive and synchronous exocytosis. After exocytotic membrane fusion, contact with the H2O and calcium ions in the external medium leads to an extremely rapid (< 50 ms) and irreversible expansion of the trichocyst contents, to yield a second, needle-shaped form which remains insoluble.)
SL-0505	T-tubule (T-tubules are invaginations of the sarcolemma penetrating into the myocyte interior, forming a highly branched and interconnected network that makes junctions with the sarcoplasmic reticulum. T-tubules are selectively enriched with specific ion channels and proteins crucial in the development of calcium transients necessary in excitation-contraction coupling, thereby facilitating a fast and synchronous contraction across the entire cell volume. T-tubules are unique to striated muscle cells, i.e. skeletal and cardiac muscle cells.)
SL-0141	uropodium (The uropodium is a rigid membrane projection with related cytoskeletal components at the trailing edge of a lymphocyte or other cell in the process of migrating or being activated, found on the opposite side of the cell from the lamellipodium or immunological synapse, respectively.)
SL-0272	Vacuole (The vacuole is a generally large fluid-filled membrane-bound compartment in the cytoplasm. The precise form and function of vacuoles may vary between phyla. Plant vacuoles are among the best characterized. They differ in terms of their lumenal contents and processing enzymes, as well as on the basis of the type of integral proteins in their membranes (tonoplast intrinsic proteins, TIPs). Examples include the lytic vacuole, the storage vacuole and the lutoid. One important function of plant vacuoles is the maintenance of hydrostatic pressure. Other eukaryotes employ vacuoles for a variety of purposes, including storage (as in the yeast lysosome/vacuole), secretion and phagocytosis. In Protozoa, contractile vacuoles can be used to discharge water from the cytoplasm to the external environment. Aquatic microorganisms may employ gas vacuoles (composed of clusters of inert gas vesicles) to provide buoyancy.)
SL-0270	Vacuole lumen (The lumen of a vacuole is the area enclosed by the vacuolar membrane.)
SL-0271	Vacuole membrane (The membrane surrounding a vacuole.)
SL-0498	Vesicle (A vesicle is a small structure consisting of fluid enclosed by a lipid bilayer. Vesicles form naturally during the processes of secretion (exocytosis), uptake (endocytosis) and transport of materials within the cytoplasm or between cells, and exist both within the cell and in the extracellular space.)
SL-0274	Virion (The virion is the complete fully infectious extracellular virus particle.)
SL-0275	Virion membrane (The membrane surrounding the virion.)
SL-0273	Virion tegument (The viral tegument is a protein structure that resides between the capsid and envelope of herpesviruses and which appears amorphous in electron micrographs.)
SL-0314	Z line (Z-disks are the lateral boundaries of a single sarcomere. In electron micrographs of cross striated muscle the Z line appears as a series of dark lines. They represent a key interface between the contractile apparatus and the cytoskeleton. The Z line (from the German "Zwischen") largely consists of alpha-actinin homodimers organized in an antiparallel fashion, thereby providing a backbone for the insertions of actin-based thin filaments, as well as titin and nebulin/nebulette. Z line of neighbouring sarcomeres are aligned in parallel and connected via the intermediate filament protein desmin. They maintain the actin filaments in a tetragonal lattice.)
SL-0540	Zona pellucida (Zona pellucida is a specialized extracellular matrix that surrounds the plasma membrane of mammalian oocytes. It is required for successful fertilization. Zona pellucida allows species-specific fertilization, prevents polyspermy, and enables acrosomal reaction for the successful adhesion and penetration of the sperm cell.)
SL-0545	Zymogen granule (A membrane-bounded, cytoplasmic secretory granule found in enzyme-secreting cells that allows the sorting, packaging and regulated apical secretion of digestive enzymes. Enzymes are packaged in these granules as zymogen or proenzyme, their inactive precursor form.)
SL-0548	Zymogen granule lumen (The zymogen granule compartment bounded by the membrane of the secretory vesicle.)
SL-0549	Zymogen granule membrane (The membrane surrounding zymogen granules.)