shell calcification

The precipitation of calcium carbonate onto the organic matrix of a shell, such as a mollusc shell.


pyrimidine nucleoside biosynthetic process

biolink:BiologicalProcess biolink:BiologicalProcessOrActivity biolink:BiologicalEntity biolink:NamedThing biolink:Entity biolink:Occurrent biolink:OntologyClass biolink:ThingWithTaxon biolink:PhysicalEssenceOrOccurrent

The chemical reactions and pathways resulting in the formation of one of a family of organic molecules consisting of a pyrimidine base covalently bonded to a sugar ribose (a ribonucleoside) or deoxyribose (a deoxyribonucleoside).


alpha-santonin 1,2-reductase activity

biolink:MolecularActivity biolink:BiologicalProcessOrActivity biolink:BiologicalEntity biolink:NamedThing biolink:Entity biolink:Occurrent biolink:OntologyClass biolink:ThingWithTaxon biolink:PhysicalEssenceOrOccurrent

Catalysis of the reaction: 1,2-dihydrosantonin + NAD(P)+ = alpha-santonin + NAD(P)H + H+.


neuron differentiation involved in amphid sensory organ development

The process in which a relatively unspecialized cell acquires specialized features of a neuron that contributes to the progression of the amphid sensory gland.


cell fate determination involved in pattern specification

A process involved in commitment of a cell to a fate in a developmental field. Once determination has taken place, a cell becomes committed to differentiate down a particular pathway regardless of its environment.


P-type silver transporter activity

Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: ATP + H2O + Ag+(in) = ADP + phosphate + Ag+(out).


regulation of buoyancy

Any process that modulates an organism's tendency or ability to rise or float in a fluid medium such as water or air, often through the use of stored gases.


chloroplast rRNA processing

Any rRNA processing that takes place in chloroplast.


maintenance of transcriptional fidelity during transcription elongation by RNA polymerase III

Suppression of the occurrence of transcriptional errors, such as substitutions and/or insertions of nucleotides that do not correctly match the template base, during the process of transcription elongation from a RNA polymerase III promoter.


positive regulation of salivary gland boundary specification

Any process that activates or increases the frequency, rate or extent of salivary gland determination.


smooth muscle relaxation of the bladder outlet

A process in which the extent of smooth muscle contraction is reduced in the bladder outlet that contributes to the expulsion of urine from the body.


protochlorophyllide reductase activity

Catalysis of the reaction: chlorophyllide a + NADP+ = protochlorophyllide + NADPH + H+.


thiazole metabolic process

The chemical reactions and pathways involving thiazole, a five-membered heterocyclic ring structure containing a sulfur in the 1-position and a nitrogen in the 3-position.


positive regulation of nematode male tail tip morphogenesis

Any process that activates or increases the frequency, rate or extent of nematode male tail tip morphogenesis.


retinol dehydratase activity

Catalysis of the reaction: 3'-phosphoadenosine 5'-phosphosulfate + retinol = adenosine 3',5'-bisphosphate + anhydroretinol.


Catalysis of the reaction: 2-hexaprenyl-6-methoxy-1,4-benzoquinone + S-adenosyl-L-methionine = 2-hexaprenyl-3-methyl-6-methoxy-1,4-benzoquinone + S-adenosyl-L-homocysteine.


Catalysis of the reaction: S-adenosyl-L-methionine + N-alpha-methyl-L-histidine = S-adenosyl-L-homocysteine + N-alpha,N-alpha-dimethyl-L-histidine.


regulation of cellular response to hepatocyte growth factor stimulus

Any process that modulates the frequency, rate or extent of cellular response to hepatocyte growth factor stimulus.


positive regulation of hemocyte proliferation

Any process that activates or increases the rate or extent of hemocyte proliferation. Hemocytes are blood cells associated with a hemocoel (the cavity containing most of the major organs of the arthropod body) that are involved in defense and clotting of hemolymph, but not involved in transport of oxygen. An example of this process is found in Drosophila melanogaster.


negative regulation of adaptive immune effector response

Any process that stops, prevents or reduces the frequency, rate or extent of adaptive immune effector response.


negative regulation of sensory perception of sweet taste

Any process that stops, prevents or reduces the frequency, rate or extent of sensory perception of sweet taste.


negative regulation of spindle checkpoint

Any process that decreases the rate, frequency, or extent of the spindle checkpoint, a cell cycle checkpoint that delays the metaphase/anaphase transition until the spindle is correctly assembled and oriented, and chromosomes are attached to the spindle.


histone H2A-K13 ubiquitination

The modification of histone H2A by addition of ubiquitin group at lysine 13 (H2A-K13) in metazoans, and at the equivalent residue in other organisms. Monoubiquitin is first attached to H2A-K13 and K63-linked ubiquitin chains are then extended from this monoubiquitin.


positive regulation of biological process

Any process that activates or increases the frequency, rate or extent of a biological process. Biological processes are regulated by many means; examples include the control of gene expression, protein modification or interaction with a protein or substrate molecule.


negative regulation of phosphatidylethanolamine metabolic process

Any process that stops, prevents or reduces the frequency, rate or extent of phosphatidylethanolamine metabolic process.


ceramide phosphoethanolamine catabolic process

The chemical reactions and pathways resulting in the breakdown of ceramide phosphoethanolamine.


phosphoenolpyruvate carboxykinase (ATP) activity

Catalysis of the reaction: ATP + oxaloacetate = ADP + CO2 + H+ + phosphoenolpyruvate.


positive regulation of response to butan-1-ol

Any process that activates or increases the frequency, rate or extent of response to butan-1-ol.


negative regulation of filamentous growth

Any process that decreases the frequency, rate or extent of the process in which a multicellular organism or a group of unicellular organisms grow in a threadlike, filamentous shape.


depolarization of postsynaptic membrane

A process that depolarizes a postsynaptic membrane relative to its resting potential. This has an excitatory effect on the post-synaptic cell, moving the membrane potential towards the firing threshold.


Catalysis of the reaction: keto-phenylpyruvate + L-tryptophan = 3-(indol-3-yl)pyruvate + L-phenylalanine.


positive regulation of RNA import into nucleus

Any process that activates or increases the frequency, rate or extent of movement of RNA from the cytoplasm into the nucleus.


neutrophil dispersal

The movement of a neutrophil away from the site of wound or infection following its initial migration to the site.


trimethylamine-oxide aldolase activity

Catalysis of the reaction: H+ + trimethylamine N-oxide = dimethylamine + formaldehyde.


selenate reductase activity

Catalysis of the reaction: 2 e(-) + 2 H+ + selenate = H2O + selenite.


negative regulation of synaptic vesicle transport

Any process that stops, prevents or reduces the frequency, rate or extent of synaptic vesicle transport.


2-aminomuconate deaminase activity

Catalysis of the reaction: 2-aminomuconate + H2O + H+ = (Z)-5-oxohex-2-enedioate + NH4.


protein maturation by nickel ion transfer

A process that contributes to the delivery of nickel ions to a target protein to facilitate its maturation.


positive regulation of cell proliferation involved in compound eye morphogenesis

Any process that activates or increases the frequency, rate or extent of cell proliferation involved in compound eye morphogenesis.


viral replication complex formation and maintenance

The process of organizing and assembling viral replication proteins in preparation for viral replication.


Catalysis of the reaction: keto-phenylpyruvate + L-tyrosine = L-phenylalanine + 3-(4-hydroxyphenyl)pyruvate.


regulation of septum digestion after cytokinesis

Any process that modulates the rate, frequency or extent of the process of physically separating the septal cell wall material by enzymatic digestion, that occurs after daughter cells are separated by cytokinesis.


anthranilate 3-monooxygenase (deaminating) activity

Catalysis of the reaction: anthranilate + 2 H+ + NADPH + O2 = 2,3-dihydroxybenzoate + NADP+ + NH4.


gibberellin A51,2-oxoglutarate:oxygen oxidoreductase activity

Catalysis of the reaction: gibberellin A51 + 2-oxoglutarate + O2 <=> H+ + gibberellin A51-catabolite + succinate + carbon dioxide + H2O.


phagosome-lysosome docking involved in apoptotic cell clearance

The initial attachment of a phagosome membrane to a lysosome membrane that occurs as a part of apoptotic cell clearance. Docking requires only that the proteins come close enough to interact and adhere.


lactate aldolase activity

Catalysis of the reaction: (S)-lactate = acetaldehyde + formate.


fungal-type cell wall disassembly involved in conjugation with cellular fusion

Any fungal-type cell wall disassembly that is involved in conjugation with cellular fusion.


regulation of L-proline import across plasma membrane

Any process that modulates the frequency, rate or extent of L-proline import across plasma membrane.


negative regulation of Hulle cell development

Any process that stops, prevents, or reduces the frequency, rate or extent of Hulle cell development, a process that leads to the formation of Hulle cells. Hulle cells are specialized multinucleate cells that originate from a nest-like aggregation of hyphae during sexual development and serve as nurse cells to the developing cleistothecium, or fruiting body.


oxidoreductase activity, acting on the CH-CH group of donors, quinone or related compound as acceptor

Catalysis of an oxidation-reduction (redox) reaction in which a CH-CH group acts as a hydrogen or electron donor and reduces a quinone or related compound.


fluorothreonine transaldolase activity

Catalysis of the reaction: L-threonine + fluoroacetaldehyde = acetaldehyde + 4-fluoro-L-threonine.


low-density lipoprotein particle disassembly

The disaggregation of a low-density lipoprotein particle into its constituent components.


deacetylipecoside synthase activity

Catalysis of the reaction: deacetylipecoside + H2O = dopamine + secologanin.


ferric-chelate reductase (NADH) activity

Catalysis of the reaction: 2 Fe3+-siderophore + NAD+ + H+ -> 2 Fe2+-siderophore + NADH.


response to rotenone

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a rotenone stimulus.


Catalysis of the reaction: 3,4-dihydroxyphenylacetate + O2 = 5-formyl-2-hydroxyhepta-2,4-dienedioate + H+.


RNA polymerase II C-terminal domain O-GlcNAc transferase activity

Catalysis of the reaction: UDP-N-acetyl-D-glucosamine + RNA polymerase II large subunit CTD heptapeptide repeat (YSPTSPS) = UDP + RNA polymerase II large subunit CTD heptapeptide repeat 3-O-(N-acetyl-D-glucosaminyl)-L-serine.


echinenone 3-hydroxylase activity

Catalysis of the reaction: echinenone + a reduced electron acceptor + oxygen = 3-hydroxyechinenone + an oxidized electron acceptor + H2O.


tri-n-butyltin dioxygenase activity

Catalysis of the reaction: tri-n-butyltin + O2 + 2 H+ + 2 e- = H2O + beta-hydroxybutyldibutyltin.


16S rRNA (guanine(1516)-N(2))-methyltransferase activity

Catalysis of the reaction: S-adenosyl-L-methionine + guanosine(1516) in 16S rRNA = N(2)-methylguanosine(1516) in 16S rRNA + S-adenosyl-L-homocysteine.


phytyl-P kinase activity

Catalysis of the reaction: phytyl phosphate(2-) + a nucleoside triphosphate <=> (E)-3,7,11,15-tetramethylhexadec-2-en-1-yl diphosphate + a nucleoside diphosphate.


regulation of cell morphogenesis involved in phenotypic switching

Any process that modulates the frequency, rate or extent of cell morphogenesis contributing a phenotypic switch. Cell morphogenesis involved in differentiation is the change in form (cell shape and size) that occurs when relatively unspecialized cells, such as the opaque cells of C. albicans, acquire specialized structural and/or functional features that characterize the cells, tissues, or organs of the mature organism or some other relatively stable phase of the organism's life history.


cement gland development

The process whose specific outcome is the progression of the cement gland over time, from its formation to the mature structure. The cement gland is a simple mucus-secreting organ positioned at the anterior of amphibious embryos. The cement gland attaches the newly hatched embryo to a support before the hatchling can swim well or feed.


small molecule catabolic process

The chemical reactions and pathways resulting in the breakdown of small molecules, any low molecular weight, monomeric, non-encoded molecule.


regulation of interleukin-18-mediated signaling pathway

Any process that modulates the frequency, rate or extent of interleukin-18-mediated signaling pathway.


camalexin biosynthetic process

The chemical reactions and pathways resulting in the formation of camalexin, an indole phytoalexin.


plasma membrane raft localization

Any process in which plasma membrane rafts are transported to, or maintained in, a specific location.


mercury (II) reductase activity

Catalysis of the reaction: H+ + Hg + NADP+ = Hg2+ + NADPH.


dAMP metabolic process

The chemical reactions and pathways involving dAMP, deoxyadenosine monophosphate (2'-deoxyadenosine 5'-phosphate).


positive regulation of aggregate size involved in sorocarp development

Any process that increases the size of the aggregate formed during sorocarp formation.


Catalysis of the reaction: N-methyl-beta-alanine + S-adenosyl-L-methionine = H+ + N,N-dimethyl-beta-alanine + S-adenosyl-L-homocysteine.


Catalysis of the reaction: 1,2-diacyl-sn-glycerol + UDP-D-galactose = 1,2-diacyl-3-beta-D-galactosyl-sn-glycerol + H+ + UDP.


mammary gland cord formation

The process in which the mammary gland cord forms by elongation of the mammary bud. The cord is formed once the elongating bud breaks through the mesenchyme and reaches the fat pad.


positive regulation of muscle filament sliding

Any process that activates or increases the frequency, rate or extent of muscle filament sliding.


polarity specification of adaxial/abaxial axis

The process resulting in the establishment of polarity along the adaxial/abaxial axis. Adaxial refers to being situated toward an axis of an anatomical structure. Abaxial refers to being situated away from an axis of an anatomical structure.


natural killer cell progenitor differentiation

The process in which a precursor cell type acquires the specialized features of a natural killer cell progenitor.


synaptic transmission, serotonergic

The vesicular release of serotonin from a presynapse, across a chemical synapse, the subsequent activation of serotonin receptors at the postsynapse of a target cell (neuron, muscle, or secretory cell) and the effects of this activation on the postsynaptic membrane potential and ionic composition of the postsynaptic cytosol. This process encompasses both spontaneous and evoked release of neurotransmitter and all parts of synaptic vesicle exocytosis. Evoked transmission starts with the arrival of an action potential at the presynapse.


regulation of endocrine process

Any process that modulates the frequency, rate or extent of an endocrine process, a process involving the secretion of or response to endocrine hormones. An endocrine hormone is a hormone released into the circulatory system.


(deoxy)nucleoside phosphate kinase activity, dTTP as phosphate donor

Catalysis of the reaction: a 2'-deoxyribonucleoside 5'-phosphate + dTTP = a 2'-deoxyribonucleoside 5'-diphosphate + dTDP.


cellular response to beta-carotene

Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a beta-carotene stimulus.


symbiont-mediated suppression of host transmembrane receptor-mediated signal transduction

A process in which a symbiont interferes with, inhibits or disrupts a transmembrane receptor-mediated signal transduction in the host organism. The host is defined as the larger of the organisms involved in a symbiotic interaction.


positive regulation of ribosomal subunit export from nucleus

Any process that activates or increases the frequency, rate or extent of ribosomal subunit export from nucleus.


2,3-dihydroxydiphenyl ether dioxygenase activity

Catalysis of the reaction: 2,3-dihydroxydiphenyl ether + O2 + H2O = 2-hydroxymuconate + phenol.


regulation of lymphocyte anergy

Any process that modulates the frequency, rate, or extent of lymphocyte anergy.


pteridine reductase activity

Catalysis of the reaction: 5,6,7,8-tetrahydrobiopterin + 2 NADP+ = biopterin + 2 H+ + 2 NADPH.


Catalysis of the reaction: quercetin 4'-O-glucoside + UDP-alpha-D-glucose(2-) <=> quercetin 3,4'-O-diglucoside + UDP(3-).


1,1,1-trichloroethane reductive dehalogenase activity

Catalysis of the reaction: 1,1,1-trichloroethane + 2 H+ + 2 e- = 1,1-dichloroethane + HCl.


oscillatory cAMP signaling

Fluctuation in the extracellular cAMP levels due to the alternate activation of adenylate cyclase, which produces cAMP, and phosphodiesterase, which degrades it. Occurs in Dictyostelium during early sorocarp development. Oscillation in signaling result is directional chemotaxis of cells towards the center of the aggregate.


RNA guanosine-uridine insertion

The modification of an RNA molecule by insertion of an guanosine-uridine insertion dinucleotide.


inner stripe development

The process whose specific outcome is the progression of the inner stripe over time, from its formation to the mature structure. The inner stripe is a deep, centrally located portion of the renal outer medulla and is traversed by thin descending and thick ascending portions of the loops of Henle.


follicular fluid formation in ovarian follicle antrum

The menstrual cycle process that results in the formation of one central cavity separating the oocyte/cumulus complex from mural granulosa and theca cells during the various stages of oogenesis.


lipoxin B4 metabolic process

The chemical reactions and pathways involving lipoxin B4. Lipoxin B4 is a C20 hydroxy fatty acid having (5S)-, (14R)- and (15S)-hydroxy groups as well as (6E)- (8Z)-, (10E)- and (12E)-double bonds.


anterior/posterior pattern specification involved in pronephros development

The developmental process that results in the creation of defined areas or spaces within the pronephros along the anterior/posterior axis to which cells respond and eventually are instructed to differentiate.


regulation of proline transport

Any process that modulates the frequency, rate or extent of proline transport.


L-aspartate oxidase activity

Catalysis of the reaction: L-aspartate + O2 = iminosuccinate + hydrogen peroxide.


sulfathiazole transmembrane transporter activity

Enables the transfer of sulfathiazole from one side of a membrane to the other. Sulfathiazole is an antibacterial agent of the sulfonamide group.


positive regulation of compound eye retinal cell apoptotic process

Any process that activates or increases the frequency, rate or extent of compound eye retinal cell apoptotic process.


response to cyclodiene

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a cyclodiene stimulus. A cyclodiene is any organic insecticide (as dieldrin or chlordane) with a chlorinated methylene group forming a bridge across a 6-membered carbon ring.


Catalysis of the reaction: 3-hydroxy-3-(4-methylpent-3-en-1-yl)glutaryl-CoA = 3-(4-methylpent-3-en-1-yl)pent-2-enedioyl-CoA + H2O.


isoprenoid catabolic process

The chemical reactions and pathways resulting in the breakdown of an isoprenoid compound, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues.


ent-isokaurene synthase activity

Catalysis of the reaction: ent-copalyl diphosphate = ent-isokaurene + diphosphate.


proteolysis associated with antigen processing and presentation

The hydrolysis of a peptide bond or bonds within a protein contributing to antigen processing and presentation.


Catalysis of the reaction: propionyl-CoA + glyoxylate = L-erythro-3-methylmalyl-CoA.


peritoneum development

The process whose specific outcome is the progression of a peritoneum over time, from its formation to the mature structure.


cichorine biosynthetic process

The chemical reactions and pathways resulting in the formation of cichorine, a secondary metabolite found in some species of fungi.


taste bud formation

The developmental process pertaining to the initial formation of the taste bud from unspecified parts. The taste bud is a specialized area of the tongue that contains taste receptors.


response to nitrate starvation

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a starvation stimulus, deprivation of nitrate.


vestibular receptor cell morphogenesis

Any process that alters the size or shape of a vestibular receptor cell.


indole-containing compound biosynthetic process

The chemical reactions and pathways resulting in the formation of compounds that contain an indole (2,3-benzopyrrole) skeleton.


regulation of plant-type cell wall cellulose catabolic process

Any process that modulates the frequency, rate or extent of plant-type cell wall cellulose catabolic process.


alcohol oxidase activity

Catalysis of the reaction: a primary alcohol + O2 = an aldehyde + H2O2.


high-affinity fructose transmembrane transporter activity

Enables the transfer of fructose from one side of a membrane to the other. In high-affinity transport the transporter is able to bind the solute even if it is only present at very low concentrations.


facioacoustic ganglion morphogenesis

The developmental process by which an acoustico-facial VII-VIII ganglion complex is generated and organized.


orcinol metabolic process

The chemical reactions and pathways involving orcinol (5-methyl-1,3-benzenediol), an aromatic compound derived from the fermentation of lichen, and synthesized, probably as a fungicide, by some higher plants.


aflatoxin biosynthetic process

The chemical reactions and pathways resulting in the formation of aflatoxin, a fungal metabolite found as a contaminant in moldy grains that induces liver cancer. Aflatoxin induces a G to T transversion at codon 249 of p53, leading to its inactivation. Aflatoxin is converted to a chemical carcinogen by P450.


protein deglutathionylation

The protein modification process in which a glutathione molecule is removed from a protein amino acid by breaking a disulfide linkage.


2-coumarate reductase activity

Catalysis of the reaction: 3-(2-hydroxyphenyl)propanoate + NAD+ = trans-2-coumarate + H+ + NADH.


pentacyclic triterpenoid catabolic process

The chemical reactions and pathways resulting in the breakdown of pentacyclic triterpenoid compounds, terpenoids with six isoprene units and 5 carbon rings.


L-lysine catabolic process to acetate

The chemical reactions and pathways resulting in the breakdown of L-lysine into other compounds, including acetate.


response to phylloquinone

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a phylloquinone (vitamin K1) stimulus.


peptidyl-S-geranylgeranyl-L-cysteine biosynthetic process from peptidyl-cysteine

The modification of peptidyl-cysteine to form peptidyl-S-geranylgeranylcysteine; formation of S-geranylgeranyl-L-cysteine may be coupled with subsequent cleavage of a carboxy-terminal tripeptide for the CAAX motif and methyl esterification of the geranylgeranylated cysteine; methyl esterification but not cleavage occurs for the CXC motif. For the type II geranylgeranyltransferase the residue may be found at the first and final positions in the sequence motif C-X-C* or at the final position in the sequence motif C-C*. These motifs are necessary but not sufficient for modification.


aldose-6-phosphate reductase (NADPH) activity

Catalysis of the reaction: D-glucitol 6-phosphate + NADP+ = D-glucose 6-phosphate + H+ + NADPH.


The chemical reactions and pathways involving any 1,2-diacyl-sn-glycero-3-phosphocholine, the compounds most commonly designated lecithin.


positive regulation of cellular response to alcohol

Any process that activates or increases the frequency, rate or extent of cellular response to alcohol.


myrcene synthase activity

Catalysis of the reaction: geranyl diphosphate = diphosphate + myrcene.


regulation of vascular associated smooth muscle cell differentiation involved in phenotypic switching

Any process that modulates the frequency, rate or extent of vascular smooth muscle cell differentiation involved in phenotypic switching.


Catalysis of the reaction: D-glutamate + H2O + O2 = 2-oxoglutarate + NH3 + H2O2, and D-aspartate + H2O + O2 = oxaloacetate + NH3 + H2O2.


D-glutaminase activity

Catalysis of the reaction: H2O + L-glutamine = NH3 + D-glutamate.


histone H2B conserved C-terminal lysine deubiquitination

A histone deubiquitination process in which a ubiquitin monomer is removed from a conserved lysine residue in the C-terminus of histone H2B. The conserved lysine residue is K119 in fission yeast, K123 in budding yeast, or K120 in mammals.


molybdenum incorporation via L-selenocysteinyl molybdenum bis(molybdopterin guanine dinucleotide)

The incorporation of molybdenum into a protein via L-selenocysteinyl molybdenum bis(molybdopterin guanine dinucleotide).


dUDP metabolic process

The chemical reactions and pathways involving dUDP, deoxyuridine (5'-)diphosphate.


Catalysis of the reaction: L-2,4-diaminobutyrate + pyruvate = L-alanine + L-aspartate 4-semialdehyde.


response to L-dopa

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a L-dopa stimulus.


Catalysis of the reaction: glucomannan(n) + GDP-mannose = glucomannan(n+1) + GDP.


pollen adhesion

The process in which pollen deposited on the stigma adheres to cells of the stigma.


response to phorbol 13-acetate 12-myristate

Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a phorbol 13-acetate 12-myristate stimulus.


nephric duct development

The process whose specific outcome is the progression of a nephric duct over time, from its initial formation to a mature structure. A nephric duct is a tube that drains a primitive kidney.


regulation of rhamnose catabolic process

Any process that modulates the frequency, rate or extent of the chemical reactions and pathways resulting in the breakdown of rhamnose, the hexose 6-deoxy-L-mannose.


regulation of filamentous growth of a population of unicellular organisms in response to heat

Any process that modulates the frequency, rate or extent of filamentous growth of a population of unicellular organisms in response to heat.


regulation of wound healing, spreading of epidermal cells

Any process that modulates the frequency, rate or extent of wound healing, spreading of epidermal cells.


sulfate assimilation, phosphoadenylyl sulfate reduction by phosphoadenylyl-sulfate reductase (thioredoxin)

The pathway by which inorganic sulfate is processed and incorporated into sulfated compounds, where the phosphoadenylyl sulfate reduction step is catalyzed by the enzyme phosphoadenylyl-sulfate reductase (thioredoxin) (EC:1.8.4.8).


negative regulation of embryonic pattern specification

Any process that stops, prevents or reduces the frequency, rate or extent of embryonic pattern specification.


prostaglandin production involved in inflammatory response

The synthesis or release of any prostaglandin following a stimulus as part of an inflammatory response, resulting in an increase in its intracellular or extracellular levels.


Catalysis of the reaction: (1->6)-alpha-D-mannosyloligosaccharide + beta-D-mannosylphosphodecaprenol = (1->6)-alpha-D-mannosyl-(1->6)-alpha-D-mannosyl-oligosaccharide + decaprenol phosphate.


regulation of oligopeptide transport

Any process that modulates the frequency, rate or extent of the directed movement of oligopeptides into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore. Oligopeptides are molecules that contain a small number (2 to 20) of amino-acid residues connected by peptide linkages.


green leaf volatile biosynthetic process

The chemical reactions and pathways resulting in the formation of volatile molecules emitted from green plants, such as hexenal, hexenol and hexenyl acetate, from linoleic acid or linolenic acid.


2-methylguanosine metabolic process

The chemical reactions and pathways involving 2-methylguanosine.


phenylacetaldehyde synthase activity

Catalyzes the reaction: L-phenylalanine + O2 + H2O -> phenylacetaldehyde + ammonia + hydrogen peroxide + CO2.


protoperithecium formation

The process of producing fruiting body precursors, called protoperithecia. Protoperitheicium is a spherical structure that is formed in the sexual phase of ascomycetous fungi such as Neurospora crassa and Sordaria macrospora. Protoperithecium is formed by the enveloping of ascogonia cells by sterile hyphae and it develops into perithecium.


molybdenum incorporation via L-cysteinyl molybdopterin

The incorporation of molybdenum into a protein via L-cysteinyl molybdopterin.


Catalysis of the reaction: 1-18:3-2-16:0-phosphatidylglycerol + O2 + a reduced electron acceptor <=> 1-18:3-2-trans-16:1-phosphatidylglycerol + 2 H2O + an oxidized electron acceptor.


UDP-glucose 4,6-dehydratase activity

Catalysis of the reaction: UDP-D-glucose = H2O + UDP-4-dehydro-6-deoxy-D-glucose.


Catalysis of the reaction: N(4)-(beta-N-acetyl-D-glucosaminyl)-L-asparagine + H2O = N-acetyl-D-glucosamine + L-asparagine.


trihydroxyferuloyl spermidine:S-adenosyl-L-methionine O-methyltransferase activity

Catalysis of the transfer of a methyl group from S-adenosyl-L-methionine to the oxygen atom of a trihydroxyferuloyl spermidine molecule.


beta-1,3-galactosyltransferase activity

Catalysis of the transfer of a galactose residue from a donor molecule to an oligosaccharide, forming a beta-1,3-linkage.


histoblast morphogenesis

The process in which the anatomical structures derived from the histoblast disc are generated and organized. This includes the transformation of histoblast cells into adult structures during pupal metamorphosis. Histoblast cells are cells founded in the embryo that are the progenitors to the adult abdomen.


anaerobic respiration

The enzymatic release of energy from inorganic and organic compounds (especially carbohydrates and fats) which uses compounds other than oxygen (e.g. nitrate, sulfate) as the terminal electron acceptor.


mono-butyltin dioxygenase activity

Catalysis of the reaction: butyltin + O2 + 2 H+ + 2 e- = H2O + beta-hydroxybutyltin.


positive regulation of erythrocyte clearance

Any process that activates or increases the frequency, rate, or extent of erythrocyte clearance.


renal system pattern specification

Any developmental process that results in the creation of defined areas or spaces within an organism to which cells respond and eventually are instructed to differentiate into the anatomical structures of the renal system.


2,3-dimethylmalate lyase activity

Catalysis of the reaction: (2R,3S)-2,3-dimethylmalate = propanoate + pyruvate.


lysine biosynthetic process via diaminopimelate, dehydrogenase pathway

The chemical reactions and pathways resulting in the formation of lysine, via the intermediate diaminopimelate; in this pathway tetrahydrodipicolinate is converted to meso-diaminopimelate in a single enzymatic step.


Catalysis of the reaction: NAD(P)+ + L-serine = nicotinamide + N2-(ADP-D-ribosyl)-L-serine.


negative regulation of pole plasm oskar mRNA localization

Any process that stops, prevents, or reduces the frequency, rate or extent of a process in which oskar mRNA is transported to, or maintained in, the oocyte pole plasm.


positive regulation of maltohexaose transport

Any process that activates or increases the frequency, rate or extent of maltohexaose transport.


regulation of mitotic telomere tethering at nuclear periphery

Any process that modulates the frequency, rate or extent of mitotic telomere tethering at nuclear periphery.


fibroblast chemotaxis

The directed movement of a fibroblast guided by a specific chemical concentration gradient. Movement may be towards a higher concentration (positive chemotaxis) or towards a lower concentration (negative chemotaxis).


tRNA wobble base modification

The process in which the nucleotide at position 34 in the anticodon of a tRNA is post-transcriptionally modified.


flavin-dependent halogenase activity

Catalysis of the reaction: R-CH + a halogen + FADH2 + O2 = R-C-halogen + FAD + H2O.


positive regulation of lactation by mesenchymal-epithelial cell signaling

The process that increases the rate, frequency, or extent of lactation as a result of the secretion of a signal from the mammary fat and its reception by a mammary epithelial cell.


positive regulation of SREBP signaling pathway in response to decreased oxygen levels

Any process that activates or increases the frequency, rate or extent of the SREBP signaling pathway in response to a decrease in oxygen levels.


delamination involved in gastrulation with mouth forming second

The splitting or migration of one epithelial sheet into two involved in the process of deuterostomic gastrulation.


procyclogenesis

The morphological, biochemical and genetic changes that induce the differentiation of bloodstream form trypomastigotes into procyclic trypomastigotes in some of the Trypanosomatidae species such as Trypanosoma brucei. This process occurs inside the midgut of the tsetse fly vectors in T. brucei.


fibroblast growth factor receptor signaling pathway involved in spinal cord anterior/posterior pattern formation

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The series of molecular signals generated as a consequence of a fibroblast growth factor receptor binding to one of its physiological ligands that results in the spatial identity of regions along the anterior-posterior axis of the spinal cord.


cytochrome P450 dependent beta-amyrin 12,13beta-epoxidase activity

Catalysis of the reaction: beta-amyrin + O2 + H+ + NAD(P)H <=> 12,13beta-epoxy-beta-amyrin + H2O + NAD(P).


positive regulation of sensory perception of bitter taste

Any process that activates or increases the frequency, rate or extent of sensory perception of bitter taste.


mannosamine biosynthetic process

The chemical reactions and pathways resulting in the formation of mannosomine, 2-amino-2-deoxymannose; the D-isomer is a constituent of neuraminic acids as well as mucolipids and mucoproteins.


acetylornithine deacetylase activity

Catalysis of the reaction: N2-acetyl-L-ornithine + H2O = acetate + L-ornithine.


small RNA binding translational repressor activity

A translational repressor activity that binds to a single-stranded small regulatory RNA (either a miRNA or a siRNA) to guide it to its target mRNA.


wobble position uridine ribose methylation

The process in which the ribose of uridine at position 34 in the anticodon of a tRNA is post-transcriptionally methylated at the 2'-O position.


histone H2A methyltransferase activity

Catalysis of the reaction: S-adenosyl-L-methionine + a histone H2 = S-adenosyl-L-homocysteine + a methylated histone H2A. Histone methylation generally occurs on either an arginine or a lysine residue.


N-glutamylanilide hydrolase activity

Catalysis of the reaction: N5-phenyl-L-glutamine + H2O = L-glutamate + aniline + H+.


kaempferol O-glucoside biosynthetic process

The chemical reactions and pathways leading to the formation of O-glucosylated derivatives of kaempferol.


renal capsule morphogenesis

The process in which the anatomical structures of the renal capsule are generated and organized. The renal capsule is the tough fibrous layer surrounding the kidney, covered in a thick layer of perinephric adipose tissue. It provides some protection from trauma and damage. During development, it comprises a single layer of flattened cells that lie just above the cortical stroma and the condensed mesenchyme of the nephrogenic zone. It is in this region that the early stages of nephron induction and formation of new generations ureteric bud branches occur, as the kidney expands.


lobar bronchus mesenchyme development

The biological process whose specific outcome is the progression of a lobar bronchus mesenchyme from an initial condition to its mature state. This process begins with the formation of the lobar bronchus mesenchyme and ends with the mature structure. The lobar bronchus mesenchyme is the mass of tissue composed of mesenchymal cells in the lobar bronchus.


(25S)-Delta(7)-dafachronate binding

Binding to (25S)-Delta(7)-dafachronate.


Catalysis of the reaction: 2-oxo-7-methylthioheptanoate + acetyl-CoA + H2O <=> H+ + 2-(5'-methylthio)pentylmalate + coenzyme A.


regulation of DNA topoisomerase (ATP-hydrolyzing) activity

Any process that modulates the frequency, rate or extent of DNA topoisomerase (ATP-hydrolyzing) activity.


NAD+ synthase activity

Catalysis of the reaction: ATP + deamido-NAD+ + NH3 = AMP + diphosphate + NAD+.


negative regulation of response to acetate

Any process that stops, prevents or reduces the frequency, rate or extent of response to acetate.


stomatal complex development

The process whose specific outcome is the progression of the stomatal complex over time from its formation to the mature structure. The stomatal complex is the stomatal guard cells and their associated epidermal cells.


antisense RNA metabolic process

The chemical reactions and pathways involving antisense RNA, an RNA molecule complementary in sequence to another RNA or DNA molecule, which, by binding the latter, acts to inhibit its function and/or completion of synthesis.


menaquinone-dependent protoporphyrinogen oxidase activity

Catalysis of the reaction: protoporphyrinogen IX + menaquinone = protoporphyrin IX + reduced menaquinone.


olfactory nerve structural organization

The process that contributes to the act of creating the structural organization of the oculomotor nerve. This process pertains to the physical shaping of a rudimentary structure. The olfactory nerve is a collection of sensory nerve rootlets that extend down from the olfactory bulb to the olfactory mucosa of the upper parts of the nasal cavity. This nerve conducts odor information to the brainstem.


pentose catabolic process to acetate

The chemical reactions and pathways resulting in the breakdown of pentose to acetate.


regulation of retinal cone cell fate specification

Any process that mediates the specification of a cell into a retinal cone cell.


monocarboxylic acid binding

Binding to a monocarboxylic acid, any organic acid containing one carboxyl (COOH) group or anion (COO-).


tergite morphogenesis

The process in which the anatomical structures of the tergite are generated and organized. The tergite is the primary plate or sclerite forming the dorsal surface of any insect body segment.


host bacteroid-containing symbiosome

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A symbiosome containing any of various structurally modified bacteria, such as those occurring on the root nodules of leguminous plants, of a host cell.


APC-tubulin-IQGAP1 complex

A protein complex that contains the tumor suppressor protein adenomatous polyposis coli (APC), alpha-tubulin, gamma-tubulin, and the Rac1 and Cdc42 effector IQGAP1; may play a role in cytoskeleton organization.


simple sieve plate

A sieve plate that contains a single specialized sieve area.


sieve plate

A part of the cell wall of a sieve tube member that bears one or more highly specialized sieve areas.


compound sieve plate

A sieve plate that contains several specialized sieve areas in either a scalariform or reticulate arrangement.


Cdc48p-Npl4p-Vms1p AAA ATPase complex

A multiprotein ATPase complex involved in the release of polyubiquitinated proteins, including those damaged by oxidative stress, from the outer mitochondria membrane into the cytoplasm where they are presented to the proteasome for proteolysis, a process also referred to as mitochondria-associated degradation (MAD). In budding yeast, this complex includes Cdc48p, Npl4p and Vms1p.


Sad1-Kms1 LINC complex

A LINC complex implicated in the connection of DNA double strand breaks to the cytoskeleton during DNA double-strand break repair.


interleukin-15 receptor complex

A protein complex that binds interleukin-15 (IL-15) and that consists of, at a minimum, an interleukin, an alpha, beta and gamma chain as well as optional additional kinase subunits. The alpha chain is unique to binds IL-15 while it shares the beta chain with the IL-2 receptor and the cytokine receptor common gamma chain with multiple interleukin receptors.


alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase complex

A catalytic protein complex that is capable of alpha-D-ribose 1-methylphosphonate 5-triphosphate synthase activity.


cytoproct

Stable, specialized structure for extrusion of waste by the cell into the surrounding medium.


activin complex

A nonsteroidal regulator, composed of two covalently linked inhibin beta subunits, inhibin beta-A and inhibin beta-B (sometimes known as activin beta or activin/inhibin beta). There are three forms of activin complex, activin A, which is composed of 2 inhibin beta-A subunits, activin B, which is composed of 2 inhibin beta-B subunits, and activin AB, which is composed of an inhibin beta-A and an inhibin beta-B subunit.


activin AB complex

A nonsteroidal regulator, composed of two covalently linked inhibin beta subunits (sometimes known as activin beta or activin/inhibin beta), inhibin beta-A and inhibin beta-B.


activin B complex

A nonsteroidal regulator, composed of two covalently linked inhibin beta-B subunits (sometimes known as activin beta-B or activin/inhibin beta-B).


alphaV-beta3 integrin-tissue transglutaminase complex

A protein complex that consists of an alphaV-beta3 integrin complex bound to tissue transglutaminase.


endoplasmic reticulum-vacuole membrane contact site

A zone of apposition between endoplasmic-reticulum and lytic vacuole membranes, structured by bridging complexes.


vacuole-mitochondrion membrane contact site

A zone of apposition between the vacuolar membrane and the mitochondrial outer membrane, important for transfer of lipids between the two organelles.


mitochondrial inner-outer membrane contact site

Sites of close apposition of the inner and outer mitochondrial membrane.


Z granule

A small cytoplasmic, non-membranous RNA/protein complex aggregate in the primordial germ cells that are distinct from, but colocalize with or are adjacent to, P granules and mutator foci and are associated with RNA metabolism. Z granules have been observed in C. elegans.


TIS granule

A ribonucleoprotein granule located in the cytoplasm that is formed by the RNA-binding protein TIS11B and RNA molecules, enriched in membrane protein-encoding mRNAs with multiple AU-rich elements. TIS granules are reticular meshworks intertwined with the endoplasmic reticulum (ER).


GW body

A ribonucleoprotein granule located in the cytoplasm and the nucleus. GW-bodies minimally contain the Argonaute2 (Ago2) and TNRC6B proteins, together with specific target RNAs.


RNP body

A ribonucleoprotein granule located in the cytoplasm of bacteria, minimally containing the RNase E protein and RNA molecules. Bacterial RNP-bodies are similar to eukaryotic P-bodies and stress granules.


cytoplasmic DNA replication factor C complex

A cytoplasmic complex of two polypeptides that loads the DNA polymerase processivity factor proliferating cell nuclear antigen (PCNA) onto DNA, thereby permitting processive DNA synthesis catalyzed by DNA polymerase. Examples of this component are found in prokaryotic species.


nuclear DNA replication factor C complex

A nuclear complex of five polypeptides that loads the DNA polymerase processivity factor proliferating cell nuclear antigen (PCNA) onto DNA, thereby permitting processive DNA synthesis catalyzed by DNA polymerase delta or epsilon. In Saccharomyces and several other species, the subunits are known as Rfc1p-Rfc5p, although subunit names do not necessarily correspond between different species.


DNA polymerase III, beta sliding clamp processivity factor complex

A subcomplex of the DNA polymerase III holoenzyme which is responsible for tethering the catalytic subunit of DNA polymerase to DNA during high-speed replication. The complex is homodimeric in prokaryotes, and homotrimeric in other species.


HU-DNA complex

A protein-DNA complex that consists of HU heterodimers (an alpha and a beta chain) assembled into octamers along DNA. HU binds to double-stranded DNA in a structure- and sequence-specific manner and bends the DNA into a nucleosome-like structure.


DNA bending complex

A protein-DNA complex that contains DNA in combination with a protein which binds to and bends DNA. Often plays a role in DNA compaction.


H-NS complex

A multimer of H-NS proteins that is involved in bacterial nucleoid condensation and negative regulation of global gene expression by directly binding to promoter regions. Recognizes both structural and sequence-specific motifs in double-stranded DNA and has binding preference for bent DNA.


IHF-DNA complex

A protein-DNA complex containing IHF heterodimers (an alpha and a beta chain) bound to DNA. IHF binds to double-stranded DNA in a structure- and sequence-specific manner and bends the DNA into a nucleosome-like structure, the bacterial nucleoid.


viral occlusion body

A crystalline protein matrix surrounding the nucleocapsids of some insect viruses after their release in the environment. Produced in the host cell, the occlusion body protects the infectious virion after death of the host.


extrinsic component of intraperoxisomal membrane

The component of the intraperoxisomal membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of postsynaptic recycling endosome membrane

The component of the postsynaptic recycling endosome membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of nuclear outer membrane

The component of a nuclear outer membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of plastid thylakoid membrane

The component of a plastid thylakoid membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of plastid membrane

The component of a plastid membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of stromal side of plastid thylakoid membrane

The component of a plastid thylakoid membrane consisting of gene products and protein complexes that are loosely bound to its stromal surface, but not integrated into the hydrophobic region.


extrinsic component of plastid inner membrane

The component of a plastid inner membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of presynaptic endosome membrane

The component of the presynaptic endosome membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of mitochondrial outer membrane

The component of a mitochondrial outer membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of postsynaptic endosome membrane

The component of the postsynaptic endosome membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of Golgi membrane

The component of a Golgi membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of lumenal side of plastid thylakoid membrane

The component of a plastid thylakoid membrane consisting of gene products and protein complexes that are loosely bound to its lumenal surface, but not integrated into the hydrophobic region.


extrinsic component of stromal side of plastid inner membrane

The component of a plastid inner membrane consisting of gene products and protein complexes that are loosely bound to its stromal surface, but not integrated into the hydrophobic region.


extrinsic component of matrix side of mitochondrial inner membrane

The component of the matrix side of the mitochondrial inner membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


extrinsic component of dense core granule membrane

The component of the dense core granule membrane consisting of gene products and protein complexes that are loosely bound to one of its surfaces, but not integrated into the hydrophobic region.


dolichyl-phosphate-mannose-protein mannosyltransferase Pmt1p-Pmt2p dimer complex

A protein dimer complex that possesses dolichyl-phosphate-mannose-protein mannosyltransferase activity and, in S. cerevisiae, is composed of Pmt1p-Pmt2p.


The region between the inner and outer lipid bilayers of the longitudinal sarcoplasmic reticulum envelope. The longitudinal sarcoplasmic reticulum lumen is continuous with the lumen contained within the terminal cisternae.


bacterial-type flagellum

A motor complex composed of an extracellular helical protein filament coupled to a rotary motor embedded in the cell envelope.


periplasmic flagellum

Flagellar filaments located in the periplasmic space; characterized in spirochetes, in which they are essential for shape and motility. Composed of a core surrounded by two sheath layers, the flagella rotate to allow migration of the cell through viscous media, which would not be possible using external flagella.


chromoplast outer membrane

The outer, i.e. cytoplasm-facing, lipid bilayer of the chromoplast envelope.


viral factory

An intracellular compartment in a host cell which increases the efficiency of viral replication, and shields the virus from host defenses. Viral factories can be either cytoplasmic or nuclear and often arise from extensive rearrangement of host cell cytoskeletal and/or cell membrane compartments.


double membrane vesicle viral factory

A cytoplasmic viral factory that consists of a double-membrane bound vesicle. Has a diameter of 200-300nm and is derived from the endoplasmic reticulum or Golgi apparatus. Produced by Picornaviridae, Nidovirales, Arteriviridae and Coronaviridae.


tube viral factory

A cytoplasmic viral factory derived from the Golgi in which Bunyaviridae replication takes place. Tubes are membranous structures close to the assembly and budding sites, and their function may be to connect viral replication and morphogenesis inside viral factories.


viroplasm viral factory

A cytoplasmic viral factory that is electron dense due to high levels of viral RNA. Produced by nucleo-cytoplasmic large DNA viruses (NCLDV) like Poxviridae, Asfarviridae and Iridoviridae, and dsRNA viruses like Reoviridae.


host cell viral assembly compartment

A membrane-bounded compartment that forms in the cytoplasm of the host cell, in which virus assembly takes place.


spherule viral factory

A cytoplasmic viral factory which is a 50-400nm diameter membrane invagination. Spherules can appear on several enveloped cellular components depending on the virus.


cytoplasmic viral factory

A viral factory located in the cytoplasm of a host cell.


phosphoenolpyruvate-dependent sugar phosphotransferase complex

Includes phosphoenolpyruvate-protein phosphatase (enzyme I of the phosphotransferase system) and protein-N(PI)-phosphohistidine-sugar phosphotransferase (enzyme II of the phosphotransferase system).


axon microtubule bundle

An arrangement of closely apposed microtubules running parallel to each other in the axon hillock and initial segment.


dynamic microtubule bundle

A microtubule bundle that undergoes changes in length, and in which microtubule sliding takes place.


static microtubule bundle

A microtubule bundle that has a constant length, and in which microtubule sliding does not take place.


Nbp35-Cfd1 ATPase complex

An iron-sulfur cluster assembly complex that is capable of weak ATPase activity. In yeast it consists of two subunits, Nbp35 and Cfd1.


peri-centrosomal recycling endosome

A recycling endosome that is organized around the microtubule organizing center, close to the nucleus. This is the main recycling endosome of most cells. It receives input from the Golgi as well as recycled molecules from early endosomes.


A protein complex that consists of fibronectin bound to tissue transglutaminase, and is involved in cell adhesion.


repressor ecdysone receptor complex

A protein complex consisting of a heterodimer of Ecdysone receptor (EcR) and ultraspiracle (usp) plus an associated corepressor such as SMRTER, which represses transcription of target genes.


cellular bud tip polarisome

Protein complex that has a role in determining cell polarity, found at the tip of a growing fungal bud.


mineralized avascular GAG-rich matrix

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Avascular GAG-rich matrix that is mineralized.


avascular GAG-rich matrix

Proteinaceous extracellular matrix that is avascular and consists primarily of glycosaminoglycans.


non-mineralized avascular GAG-rich matrix

Avascular GAG-rich matrix that is not mineralized.


icosahedral viral capsid, collar fiber

A fiber attached to the collar structure of some icosahedral viral capsids.


BLOC complex

Any of several protein complexes required for the biogenesis of specialized organelles of the endosomal-lysosomal system, such as melanosomes, platelet dense granules, and other related organelles; acronym for biogenesis of lysosomal-related organelles complex.


serine-tRNA ligase complex

A heterodimeric enzyme complex that catalyzes the ligation of serine to tRNA(Ser), forming L-seryl-tRNA(Ser).


Ycf2/FtsHi complex

A protein complex located in the chloroplast inner membrane and facing the stroma that is associated with the chloroplast inner membrane translocase complex and provides the ATPase motor activity to drive import of proteins into the chloroplast stroma.


lumenal side of smooth endoplasmic reticulum membrane

The side (leaflet) of the smooth endoplasmic reticulum membrane that faces the lumen.


lumenal side of rough endoplasmic reticulum membrane

The side (leaflet) of the rough endoplasmic reticulum membrane that faces the lumen.


plasma membrane proton-transporting ATP synthase, stator stalk

One of two stalks that connect the catalytic core of the hydrogen-transporting ATP synthase to the plasma membrane-associated F0 proteins; is thought to prevent futile rotation of the catalytic core. Examples of this component are found in Bacterial species.


proton-transporting ATP synthase, stator stalk

One of two stalks that connect the catalytic core of the hydrogen-transporting ATP synthase to the membrane-associated Fo proteins; is thought to prevent futile rotation of the catalytic core.


rhabdomere membrane

The portion of the plasma membrane surrounding the rhabdomere.


Tle3-Aes complex

A transcriptional repressor complex that consists of a heterodimer of the proteins Tle3 (also known as Grg3b) and Aes (Grg5), which are homologs of the Drosophila groucho gene product.


Cyc8(Ssn6)-Tup1 general repressor complex

A corepressor complex containing the WD-repeat protein Tup1p (S. cerevisiae) and Tup11/Tup12 (fission yeast) and the TPR repeat protein Cyc8p (S. cerevisiae) ssn6 (fission yeast) that is recruited to target genes by DNA-bound repressor proteins preferentially at regions where histones are deacetylated by the Clr6 class I HDAC, and recruits the SWI/SNF and SAGA complexes to promoters.


Mad-Max-mSin3A complex

A transcriptional repressor complex that contains a heterodimer of the bHLH-ZIP proteins Mad and Max, plus mSin3A, a homolog of the yeast Sin3p.


collagen and cuticulin-based cuticle extracellular matrix

A collagen and cuticulin-based noncellular, multilayered structure that is synthesized by an underlying ectodermal (hypodermal) cell layer. The cuticle serves essential functions in body morphology, locomotion, and environmental protection. An example of this component is found in Caenorhabditis elegans.


chitin-based extracellular matrix

Any constituent part of a chitin-based noncellular, hardened, or membranous extracellular matrix secreted from the apical surface of an epithelial sheet.


fertilization envelope

A structure that lies outside the plasma membrane and surrounds the egg. The fertilization envelope forms from the vitelline membrane after fertilization as a result of cortical granule release.


hyaline layer

A multilayered extraembryonic matrix that functions as a substrate for cell adhesion through early development. It is thought to protect and lubricate the embryo, stabilize the blastomeres during morphogenesis, and regulate nutrient intake. The major constituent of the hyaline layer is the protein hyalin. This matrix has been found in echinoderms.


fungal biofilm matrix

An extracellular matrix lying external to fungal cells. The fungal biofilm matrix consists of polysaccharides, proteins, lipids, and nucleic acids. Fungal biofilms mediate adherence to host tissues, and provide protection from host immune defenses.


biofilm matrix

A structure lying external to microbial cells. A biofilm is an aggregate of surface-associated cells, and the biofilm matrix is the envelope of polymeric substances that surrounds the cells.


bacterial biofilm matrix

A structure lying external to bacterial cells. A biofilm is an aggregate of surface-associated bacteria, and the biofilm matrix is the envelope of polymeric substances that surrounds the bacteria.


organomineral extracellular matrix

An extracellular matrix consisting of a densely packed organomineral assembly in which the mineral phase represents the majority of the material by weight.


synapse-associated extracellular matrix

The extracellular matrix of the perisynaptic space (the extracellular space adjacent to the synapse) and the synaptic cleft.


pollen coat

A layer of extracellular matrix deposited onto the surface of the pollen wall upon disintegration of the tapetal layer of the anther wall in the late stages of pollen development. The composition of this material is highly heterogeneous and includes waxes, lipid droplets, small aromatic molecules, and proteins. The pollen coat is proposed to have many functions, such as holding pollen in the anther until dispersal, facilitation of pollen dispersal, protection of pollen from water loss and UV radiation, and facilitation of adhesion of pollen to the stigma.


mineralized extracellular matrix

Extracellular matrix that is mineralized.


vitelline envelope

A glycoprotein-based structure that lies outside the plasma membrane and surrounds the egg before fertilization.


adhesive extracellular matrix

A extracellular matrix which attaches an organism to a substrate.


ATG2-ATG18 complex

A protein complex essential for autophagy during nutrient deprivation, a catabolic process that sequesters undesired cellular material into autophagosomes for delivery to lysosomes for degradation. Contributes to nutrition homeostasis and damage control in eukaryotic cells. Functions at a late step of autophagosome formation for efficient completion of sequestration, probably through facilitating recruitment of ATG8-phosphatidylethanolamine (PE) to the preautophagosomal structure (PAS) and/or its protection from deconjugation by ATG4. Composed of ATG2 and ATG18 in Saccharomyces cerevisiae.


Schwann cell microvillus

Small finger-like extension of a Schwann cell that contacts the nodal membrane.


inner dense plaque of desmosome

The desmosomal part containing the C-termini of desmoplakins which interact with the keratin intermediate filaments, serving to tether the intermediate filaments to the plasma membrane.


post-lysosomal vacuole

A membrane-bounded intracellular vesicle formed late in the endocytic pathway when the pH in the vacuole becomes neutral prior to exocytosis.


piccolo-bassoon transport vesicle

A cytoplasmic dense-core vesicle that transports a range of proteins including piccolo, bassoon, N-cadherin and syntaxin. The transported proteins may be associated with the external side of the vesicle, rather than being contained within the vesicle, therefore forming an aggregate of vesicle and proteins. Piccolo-bassoon transport vesicles (or PTVs) range in size from approximately 80 nm in diameter for dense core vesicles to 130 nm by 220 nm in area for aggregates. They are packaged via the trans-Golgi network before being transported through the axon.


merozoite dense granule

Electron-dense organelle with a granular internal matrix found throughout the merozoite life cycle stage of apicomplexan parasites; contains proteins destined to be secreted into the parasitophorous vacuole following parasite invasion of a host cell.


chloroplast vesicle

A intracellular vesicle that is part of a chloroplast.


virion transport vesicle

A vesicle used to transport the partial or complete virion between cellular compartments.


bacteroid-containing symbiosome

A symbiosome containing any of various structurally modified bacteria, such as those occurring on the root nodules of leguminous plants.


food vacuole

Vacuole within a parasite used for digestion of the host cell cytoplasm. An example of this component is found in the Apicomplexa.


synaptic vesicle, readily releasable pool

A synaptic vesicle belonging to the pool of vesicles that are the first to be released as a result of chemical or electrical stimulation e.g. by an action potential, have the highest presynaptic membrane fusion probability and correspond to about 1% of the total number of synaptic vesicles at a resting terminal bouton.


A cytoplasmic vesicle composed of both tubulovesicular and clear core vesicles that transport synaptic vesicle-associated proteins. Proteins carried by synaptic vesicle protein transport vesicles (STVs) include synaptophysin, synapsin Ia, synaptotagmin and synaptobrevin/vesicle-associated membrane protein 2 (VAMP2). STVs are packaged via the trans-Golgi network before being transported through the axon.


chitosome

An intracellular membrane-bounded particle found in fungi and containing chitin synthase; it synthesizes chitin microfibrils. Chitin synthase activity exists in chitosomes and they are proposed to act as a reservoir for regulated transport of chitin synthase enzymes to the division septum.


COPI-coated inter-Golgi transport vesicle

A vesicle that mediates transport of cargo within the Golgi complex (for example, between cisternae of the Golgi stack).


clathrin-sculpted gamma-aminobutyric acid transport vesicle

A clathrin-sculpted lipid bilayer membrane-enclosed vesicle after clathrin release and containing gamma-aminobutyric acid transport vesicle.


leucosome

A tissue-specific, membrane-bounded cytoplasmic organelle within which uric acid and/or purines crystalize in reflective stacks. Leucosomes are synthesized in leucophore cells and have a whitish cast.


pigment granule

A small, subcellular membrane-bounded vesicle containing pigment and/or pigment precursor molecules. Pigment granule biogenesis is poorly understood, as pigment granules are derived from multiple sources including the endoplasmic reticulum, coated vesicles, lysosomes, and endosomes.


carotenoid vesicle

A tissue-specific cytoplasmic vesicle surrounded by a membrane half-leaflet within which carotenoid pigments are stored. Carotenoid vesicles are synthesized in xanthophores and erythrophore cells and are yellow, orange or red in appearance.


pexophagosome

A membrane-bounded intracellular vesicle involved in the degradation of peroxisome by macropexophagy.


mucocyst

A small subcellular vesicle, surrounded by a membrane, in the pellicle of ciliate protozoans that discharges a mucus-like secretion.


gut granule

A lysosome-related organelle contained within the intestinal cells of the nematode C. elegans. Gut granules are acidified, birefringent, autofluorescent, and contain the vacuolar H+-ATPase. They also serve as sites of cellular zinc storage.


pinosome

A membrane-bounded, uncoated intracellular vesicle formed by the process of pinocytosis.


clathrin-sculpted vesicle

A clathrin-sculpted lipid bilayer membrane-enclosed vesicle after clathrin release.


synaptic vesicle, recycling pool

A synaptic vesicle belonging to the pool that repopulate vacancies within the readily releasable pool (RRP) of synaptic vesicles, and require more significant stimuli than the RRP in order to release neurotransmitter; about 10-15% of the total number of synaptic vesicles at a resting terminal bouton are in this state.


neurosecretory vesicle

A large cytoplasmic membrane-bounded vesicle with an electron dense granular core, up to 150-200 nm in diameter, found in neurosecretory cells in the hypothalamus.


clathrin-coated phagocytic vesicle

A clathrin-coated, membrane-bounded intracellular vesicle that arises from the ingestion of particulate material by phagocytosis.


ciliary vesicle

A Golgi-derived vesicle to which the ciliary basal body docks via its transitional fibers. Its membrane is compositionally distinct from Golgi membranes, and will become the ciliary membrane once the ciliary vesicle is fused to the plasma membrane. The ciliary vesicle is thought to be formed by multiple smaller vesicles that attach to the transitional fibers and then fuse to form a larger vesicle.


micropinosome

A membrane-bounded, uncoated intracellular vesicle formed by the process of micropinocytosis.


dendritic lamellar body

A specialized secretory organelle found in neurons and associated with the formation of dendrodendritic gap junctions.


symbiosome

A double-enveloped cell compartment, composed of an endosymbiont with its plasmalemma (as inner envelope) and a non-endosymbiotic outer envelope (the perisymbiontic membrane).


contractile vacuole

A specialized vacuole of eukaryotic cells, especially Protozoa, that fills with water from the cytoplasm and then discharges this externally by the opening of contractile vacuole pores. One of its functions is osmoregulatory.


aleurone grain

A membrane-bounded storage granule found in cells of the aleurone layer in plants; contains either a protein matrix, protein-carbohydrate bodies and/or globoids. Aleurone grains are formed by the vacuole, rough endoplasmic reticulum and dictyosomes.


clathrin-sculpted acetylcholine transport vesicle

A clathrin-sculpted lipid bilayer membrane-enclosed vesicle after clathrin release and containing acetylcholine.


Cvt vesicle

A cytosolic vesicle that is enclosed by a double membrane and is implicated in the cytoplasm to vacuole targeting pathway. These vesicles are found in the yeast S. cerevisiae, and contain vacuolar hydrolases, aminopeptidase I (Ape1p) and alpha-mannosidase (Ams1p).


apical recycling endosome

Tubulo-vesicular structure located in the apical cytoplasm that participates in apical cargo recycling in polarized epithelial cells.


organellar chromatophore

A bacteroid-containing symbiosome in which the bacterial component is a genetically highly reduced cyanobacterium that is photosynthetically active and incapable of an independent existence outside its host. The chromatophore functions as a photosynthetic organelle, and has been found and characterized in the amoeba Paulinella chromatophora.


cyanosome

A tissue-specific, membrane-bounded cytoplasmic organelle within which an unknown blue pigment is localized. Cyanosomes are synthesized in cyanophores and are blue in appearance.


amorphous vesicle

A cytoplasmic membrane-bounded vesicle first described in dendrites, categorized by smooth membranes, electron-lucent interiors and irregular shapes. Sometimes occurs in clumps. Amorphous vesicles have been found to contain material taken up from the extracellular space, therefore suggesting that they may be part of the endosomal pathway.


osmiophilic body

A membrane-bounded vesicle found predominantly in Plasmodium female gametocytes, that becomes progressively more abundant as the gametocyte reaches full maturity. These vesicles lie beneath the subpellicular membrane of the gametocyte, and the release of their contents into the parasitophorous vacuole has been postulated to aid in the escape of gametocytes from the erythrocyte after ingestion by the mosquito.


clathrin-sculpted monoamine transport vesicle

A clathrin-sculpted lipid bilayer membrane-enclosed vesicle after clathrin release and containing monoamines.


pterinosome

A tissue-specific, membrane-bounded cytoplasmic organelle within which pteridine pigments are synthesized and stored. Pterinosomes are synthesized in xanthophores and erythrophore cells and are yellow, orange or red in appearance.


fusiform vesicle

A cytoplasmic vesicle which contains two urothelial plaques and can deliver these plaques to the apical plasma membrane of urothelial superficial (umbrella) cells. It can also be formed by endocytosis of apical plasma membrane during contractions of the urinary bladder.


ficolin-1-rich granule

Highly exocytosable gelatinase-poor granules found in neutrophils and rich in ficolin-1. Ficolin-1 is released from neutrophil granules by stimulation with fMLP or PMA, and the majority becomes associated with the surface membrane of the cells and can be detected by flow cytometry.


esterosome

A vesicle filled with crystalline protein that shows sequence similarities with various esterases.


basolateral recycling endosome

Tubulo-vesicular structure located in the basolateral cytoplasm that participates in basolateral cargo recycling in polarized epithelial cells.


pericanalicular vesicle

A membrane-bounded vesicle found near the apical, or pericanalicular, membrane of a hepatocyte; contains proteins involved in bile salt transport and other fluid and solute transport processes.


calcitonin family receptor complex

A protein complex which is capable of calcitonin family receptor activity. Calcitonin family receptors may form dimers, trimers or tetramers; adrenomedullin and amylin receptors have only been observed as dimers so far.


amylin receptor complex

A protein complex which is capable of amylin receptor activity.


MutS complex

A homodimeric mismatch repair complex involved in binding to and correcting insertion/deletion mutations.


MutSgamma complex

A heterodimer involved in the stabilization of DNA recombination intermediates, the promotion of crossover recombination, and the proper assembly of the synaptonemal complex in meiotic prophase nuclei. In yeast the complex consists of two subunits, Msh4 and Msh5.


MutLbeta complex

A heterodimer involved in the recognition of base-base and small insertion/deletion mismatches. In human the complex consists of two subunits, MLH1 and PMS1.


MutLgamma complex

A heterodimer involved in the recognition of base-base and small insertion/deletion mismatches. In S. cerevisiae the complex consists of two subunits, Mlh1 and Mlh3.


MAML2-RBP-Jkappa-ICN4 complex

A protein complex that consists of the intracellular domain of Notch4 (ICN4), the DNA-binding transcription factor RBP-Jkappa, and the transcriptional coactivator Mastermind-like-2 (MAML2); the complex is involved in transcriptional activation in response to Notch-mediated signaling.


A protein complex that contains the cell adhesion molecules protocadherin-alpha-v4 and protocadherin-gamma-b2, and is involved in the regulation of protein localization to the plasma membrane.


tubovesicular membrane network

A complex, symbiont-induced host-derived organelle that is comprised of multiple protein and lipid domains.


signal recognition particle, plasma membrane targeting

A complex consisting of a protein and RNA component which binds the signal sequence of some proteins and facilitates their export to or across the plasma membrane.


transcription factor TFIIIB-alpha complex

A transcription factor TFIIIB-beta complex that contains the TATA-binding protein (TBP), B'' and a specialized homolog of the conserved subunit BRF referred to as BRFU or TFIIIB50, which found in human but not conserved in yeast; the complex is involved in the regulation of transcription from type 3 (upstream) RNA polymerase III promoters.


intestinal brush border layer

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A brush border layer that is part of a intestine.


excinuclease repair complex

Any of the protein complexes formed by the UvrABC excinuclease system, which carries out nucleotide excision repair. Three different complexes are formed by the 3 proteins as they proceed through the excision repair process. First a complex consisting of two A subunits and two B subunits bind DNA and unwind it around the damaged site. Then, the A subunits disassociate leaving behind a stable complex between B subunits and DNA. Now, subunit C binds to this B+DNA complex and causes subunit B to nick the DNA on one side of the complex while subunit C nicks the DNA on the other side of the complex. DNA polymerase I and DNA ligase can then repair the resulting gap.


minus-end kinesin complex

Any complex that includes a dimer of molecules from the kinesin superfamily and any associated proteins, and moves towards the minus end of a microtubule.


axonemal central bridge

Part of the 9+2 axoneme, that occurs in most motile cilia, consisting of the two bridges which connect the central pair of single microtubules.


triglyceride-rich plasma lipoprotein particle

A plasma lipoprotein particle that has a hydrophobic core enriched in triglycerides surrounded by an amphipathic monolayer of phospholipids, cholesterol and apolipoproteins. Triglyceride-rich lipoprotein particles transport lipids, which are non-covalently associated with the particles, in the blood.


LinE complex

A protein complex that associates with chromatin to form linear elements in fission yeast. In S. pombe, the LinE complex contains four main structural components (Rec10, Rec25, Rec27, and Mug20) and other associated proteins.


macropinocytic cup membrane

The portion of the plasma membrane surrounding a macropinocytic cup.


sensory dendrite

A dendrite that is found on a sensory neuron, and directly transduces a sensory signal from the sensory neuron to another neuron.


ER-to-endosome phospholipid transfer complex

Lipid transfer complex that is responsible for the non-vesicular transport of phospholipids, such as phosphatidylserine, from the endoplasmic reticulum to the endosome. It resides in the endosomal (acceptor) membrane and binds to specific lipids on the donor membrane at the ER-endosome contact site.


external side of mycolate outer membrane

The side (leaflet) of the mycolate outer membrane that faces the environment and any proteins embedded in it or loosely bound to its surface.


lumenal side of early endosome membrane

The side (leaflet) of the early endosome membrane that faces the lumen.


lumenal side of transport vesicle membrane

The side (leaflet) of the transport vesicle membrane that faces the lumen.


periplasmic side of plasma membrane

The side (leaflet) of a plasma membrane that faces the periplasm, and all proteins embedded in it or attached to its surface.


lumenal side of endosome membrane

The side (leaflet) of the endosome membrane that faces the lumen.


lumenal side of late endosome membrane

The side (leaflet) of the late endosome membrane that faces the lumen.


cytoplasmic side of transport vesicle membrane

The side (leaflet) of the transport vesicle membrane that faces the cytoplasm.


stromal side of plastid inner membrane

The side (leaflet) of the plastid inner membrane that faces the stroma, and any proteins embedded in it or loosely bound to its surface.


periplasmic side of cell outer membrane

The side (leaflet) of the outer membrane that faces the periplasm of the cell.


internal side of mycolate outer membrane

The side of the mycolate outer membrane that faces the cell wall peptidoglycan. It is rich in long-chain mycolic acids (hydroxylated branched-chain fatty acids) that are covalently linked to the cell wall peptidoglycan via an arabinogalactan network.


cytoplasmic side of plasma membrane, cell tip

The leaflet the plasma membrane at the cell tip that faces the cytoplasm and any proteins embedded or anchored in it or attached to its surface.


lumenal side of plastid thylakoid membrane

The side (leaflet) of the plastid thylakoid membrane that faces the lumen, and any proteins embedded in it or loosely bound to its surface.


lumenal side of trans-Golgi network transport vesicle membrane

The side (leaflet) of the trans-Golgi network transport vesicle membrane that faces the lumen.


stromal side of plastid thylakoid membrane

The side (leaflet) of the plastid thylakoid membrane that faces the stroma, and any proteins embedded in it or loosely bound to its surface.


lumenal side of Golgi membrane

The side of the Golgi membrane that faces the lumen.


cytoplasmic side of smooth endoplasmic reticulum membrane

The side (leaflet) of the smooth endoplasmic reticulum membrane that faces the cytoplasm.


external side of cell outer membrane

The side of the outer membrane that is opposite to the side that faces the periplasm of the cell.


cochlear basement membrane

The the continuous basement membrane found within the membranous labyrinth of the cochlea, known to extend from the limbus, down to the inner sulcus, across the basilar membrane, up to the external sulcus to the spiral prominence and radiating into the spiral ligament ensheathing the root cell processes.


mitotic spindle pole body

The microtubule organizing center that forms as part of the mitotic cell cycle; functionally homologous to the animal cell centrosome.


old mitotic spindle pole body

The spindle pole body that exists in a cell prior to spindle pole body duplication. An old spindle pole body segregates to the daughter cell upon mitosis, and lacks active proteins involved in signaling exit from mitosis.


new mitotic spindle pole body

The spindle pole body that is formed by spindle pole body duplication, and to which proteins involved in mitotic exit signaling (for example, the septation initiation network in fission yeast) localize.


G-protein alpha(q)-synembrin complex

A protein complex formed by the association of the guanine nucleotide exchange factor synembrin with the alpha(q) subunit of a heterotrimeric G protein.


plastid acetyl-CoA carboxylase complex

An acetyl-CoA carboxylase complex located in the stroma of a plastid.


acetyl-CoA carboxylase complex

A protein complex that catalyzes the first step in long-chain fatty acid biosynthesis. For example, in E. coli the complex is heterohexameric and composed of biotin carbonyl carrier protein, biotin carboxylase and the acetate CoA-transferase complex.


IgG B cell receptor complex

An IgG immunoglobulin complex that is present in the plasma membrane of B cells and is composed of two identical immunoglobulin heavy chains of an IgG isotype and two identical immunoglobulin light chains and a signaling subunit, a heterodimer of the Ig-alpha and Ig-beta proteins.


mitochondrial inner membrane assembly complex

A protein complex that promotes the biogenesis of mitochondrial F1Fo-ATP synthase by facilitating assembly of the peripheral stalk. Loss of INAC function causes dissociation of the F1-domain from the membrane-integral Fo-portion.


Gram-negative-bacterium-type cell wall

The peptidoglycan layer of the Gram-negative cell envelope. In Gram-negative cells the peptidoglycan is relatively thin (1-2nm) and is linked to the outer membrane by lipoproteins. In Gram-negative cells the peptidoglycan is too thin to retain the primary stain in the Gram staining procedure and therefore cells appear red after Gram stain.


A homohexameric complex that recognizes and unfolds core proteasome substrate proteins, and translocates them to the core complex in an ATP dependent manner.


photoreceptor cell terminal bouton

A specialized region of the axon terminus portion of a photoreceptor cell axon. A photoreceptor cell is a neuron specialized to detect and transduce light.


Lewy body-like hyaline inclusion

Cytoplasmic inclusion found in neurons. It consists of filaments and granular materials, exhibits a dense core with a rough peripheral halo and lacks a limiting membrane. The filaments of these inclusions are composed of approximately 15-25 nm granule-coated fibrils in association with normal 10-nm neurofilaments.


P-TEFb-cap methyltransferase complex

A protein complex that is formed by the association of positive transcription elongation factor complex b (P-TEFb) with the mRNA capping methyltransferase.


lysosomal multienzyme complex

A protein complex found in the lysosome that contains beta-galactosidase, cathepsin A, alpha-neuraminidase and N-acetylgalactosamine-6-sulfate sulfatase, and is involved in glycosaminoglycan catabolism.


caveola bulb

The region of a caveola that extends into the cytoplasm, excluding the neck (rim). This region is associated with intracellular caveola proteins.


collagen anchoring fibril

A specialised collagen fibril that functions as an anchor, binding to other collagen structures.


collagen type VII anchoring fibril

An antiparallel dimer of two collagen VII trimers, one end of which is embedded in the lamina densa while the other end attaches to banded collagen fibrils in the dermis.


cytosolic DNA-directed RNA polymerase complex

The eubacterial DNA-directed RNA polymerase is a multisubunit complex with a core composed of the essential subunits beta-prime, beta, and two copies of alpha and a fifth nonessential subunit called omega. An additional subunit, a sigma factor, is required for promoter recognition and specificity.


pollen aperture

An area where exine is reduced or absent, in the pollen wall.


viral terminase, large subunit

The part of the viral terminase complex that contains the translocase and endonuclease activities and allows the translocation of the phage DNA into the procapsid. The large subunit usually assembles as a heterooligomer with the small subunit.


P5 peroxisome

A subform of peroxisome that corresponds to an intermediate in a peroxisome assembly pathway, which operates by conversion of peroxisomal subforms in the direction P1, P2 -> P3 -> P4 -> P5 -> P6. P5 peroxisomes are distinguished from the other subforms on the bases of buoyant density and protein content.


collagen sheet

A protein complex that consists of collagen triple helices associated to form a sheet-like network.


A protein complex that comprises one integrin alphav subunit, one integrin beta5 subunit, and vitronectin.


meiotic recombination initiation complex

A protein complex that initiates the formation of double-strand breaks (DSBs) required for meiotic recombination. Consists of a protein that catalyses formation of the double-strand breaks (Spo11 in S. cerevisiae and Rec12 in S. pombe), and a number of accessory proteins.


cytosolic proteasome core complex, beta-subunit complex

The proteasome core subcomplex that constitutes the two inner rings of the cytosolic proteasome core complex.


adenylyltransferase complex

A protein complex which is capable of adenylyltransferase activity.


diamine N-acetyltransferase complex

A protein complex which is capable of diamine N-acetyltransferase activity.


GATA2-TAL1-TCF3-Lmo2 complex

A protein complex that contains the zinc finger transcription factor GATA2, the LIM domain protein Lmo2 (RBTN2), the basic helix-loop-helix protein TAL1 and its binding partner TCF3. The complex is involved transcriptional regulation in hematopoiesis.


Kelch-containing formin regulatory complex

A protein complex that regulates actin cable formation, polarized cell growth, and cytokinesis in a formin-dependent manner. In S. cerevisiae the complex is composed of Bud14p and two Kelch family proteins, Kel1p and Kel2p.


Cul8-RING ubiquitin ligase complex

A ubiquitin ligase complex in which a cullin from the Cul8 subfamily and a RING domain protein form the catalytic core. In S. cerevisiae, Mms1p acts as the adaptor protein and substrate specificity is conferred by any of a number of different proteins.


endobrevin-SNAP-25-syntaxin-2 complex

A SNARE complex that contains endobrevin (VAMP8), SNAP-25, and syntaxin 2 (or orthologs thereof).


myosin III complex

A myosin complex containing a class III myosin heavy chain and associated light chains; myosin III is monomeric myosin that serves as a link between the cytoskeleton and the signaling complex involved in phototransduction, and differs from all other myosins in having an N-terminal kinase domain.


right ventral flagellum

A cilium (also called flagellum) found in Giardia species (trophozoite stage). It is nucleated by the right ventral basal body and exits the cell body proximally and dorsal to the ventral disc.


protein-carbohydrate complex

A macromolecular complex containing separate protein and carbohydrate molecules. Separate in this context means not covalently bound to each other.


E.F.G complex

A protein complex that comprises three core spliceosomal proteins, designated E, F, and G. Formation of the E.F.G complex is essential but not sufficient for the formation of a stable U1 snRNP complex.


dimeric ribonuclease P complex

A ribonuclease P complex that contains a single RNA molecule that is necessary and usually sufficient for catalysis, and a single protein molecule. Examples of this complex are found in Bacterial species.


alphav-beta3 integrin-ADAM23 complex

A protein complex that consists of an alphav-beta3 integrin complex bound to the transmembrane metallopeptidase ADAM23.


glutamate dehydrogenase complex

A homomeric protein complex that possesses glutamate dehydrogenase activity. This complex is evolutionarily conserved except that the number of homoprotomers per complex varies.


carbon phosphorus lyase complex

A protein complex which is capable of carbon phosphorus lyase activity.


plasma membrane proton-transporting V-type ATPase, V1 domain

The V1 domain of a proton-transporting V-type ATPase found in the plasma membrane.


alpha-heterochromatin

A small, compact region of heterochromatin located in the middle of the polytene chromosome chromocenter, which undergoes little or no replication during polytenization.


DnaB helicase complex

A homohexameric protein complex that possesses DNA helicase activity; functions during DNA replication and repair.


alpha11-beta1 integrin-collagen type I complex

A protein complex that consists of an alpha11-beta1 integrin complex bound to a type I collagen.


retroviral intasome

A tetramer of retroviral integrase subunits tightly associated with a pair of viral DNA ends. Functions to insert viral DNA into a host cell chromosome.


COMA complex

A kinetochore multiprotein complex that bridges the subunits that are in contact with centromeric DNA and the subunits bound to microtubules during kinetochore assembly. In yeast, consists of Ctf19p, Okp1p, Mcm21p, and Ame1p.


type III protein secretion system complex

A complex of approximately 20 proteins, most of which are located in the cytoplasmic membrane that carries out protein secretion in the bacterial type III secretion system; type III secretion also requires a cytoplasmic, probably membrane-associated ATPase.


DNA polymerase III, clamp loader complex

A heptamer that includes the tau and gamma products of the dnaX gene and the chi/psi subcomplex. Confers structural asymmetry that allows the polymerase to replicate both leading and lagging strands.


nuclear proteasome core complex

The core complex of a proteasome located in the nucleus of a cell.


DnaB-DnaG complex

A protein complex containing homohexameric DnaB helicase, and DnaG (a primase). Facilitates the unwinding of double-stranded DNA and the synthesis of RNA primer sequences during DNA replication and repair in Prokaryotes.


glutamate synthase complex

A complex that possesses glutamate synthase activity.


sulfurtransferase complex

A protein complex capable of catalyzing the transfer of sulfur atoms from one compound (donor) to another (acceptor).


GroEL-GroES complex

Bacterial chaperonin complex consisting of a heptameric 10kDa chaperonin subunit GroES and a tetradecameric (2x7) 60kDa chaperonin subunit GroEL. The 60kDa subunit possesses ATPase activity while the holo-enzyme is responsible for the correct folding of proteins.


mitochondrial pyruvate dehydrogenase (lipoamide) phosphatase complex

A mitochondrial complex of a regulatory and catalytic subunit that catalyzes the dephosphorylation and concomitant reactivation of the alpha subunit of the E1 component of the pyruvate dehydrogenase complex. An example of this component is found in Mus musculus.


cellulose synthase complex

A large, multimeric protein complex, organized in a rosette, which catalyzes the biosynthesis of cellulose for the plant cell wall.


trimethylamine-N-oxide reductase (cytochrome c) complex

A protein complex which is capable of trimethylamine-N-oxide reductase (cytochrome c) activity.


mating projection tip polarisome

Protein complex that has a role in determining cell polarity, found at the tip of the mating projection in unicellular fungi exposed to mating pheromone.


collagen type XXI trimer

A collagen homotrimer of alpha1(XXI) chains; type XXI collagen triple helices found in the extracellular matrix component of blood vessel walls and in the cytoplasm of cultured human aortic smooth muscle.


Hpa2 acetyltransferase complex

A tetrameric protein complex capable of acetyltransferase activity. It can catalyze the transfer of an acetyl group from acetyl-CoA to an acceptor residue on histone H-3, histone H-4, or on polyamines. The complex is also capable of acetylating certain small basic proteins. The two Hpa2 dimers that make up the tetramer are held together by interactions between the bound acetyl-CoA molecules.


A protein complex that consists of an alphav-beta3 integrin complex bound to thrombospondin.


ferroxidase complex

A protein complex which is capable of ferroxidase activity.


collagen type XXV trimer

A collagen homotrimer of alpha1(XXV) chains; type XXV collagen triple helices span the plasma membrane.


PSII associated light-harvesting complex II, peripheral complex

Pigment-protein complex primarily associated to PSII in plants, green algae and cyanobacteria. Involved in state transitions that cause migration to PSI under certain environmental conditions such as high light.


PDX1-PBX1b-MRG1 complex

A protein complex that contains the homeodomain proteins PDX1, PBX1b and MRG1 (MEIS2) and is involved in the transcriptional regulation of pancreatic acinar cell-specific genes.


APC-IQGAP1-Cdc42 complex

A protein complex that contains the tumor suppressor protein adenomatous polyposis coli (APC), the small GTPase Cdc42, and the Rac1 and Cdc42 effector IQGAP1; may play a role in cytoskeleton organization and cell migration.


alpha4-beta1 integrin-paxillin complex

A protein complex that consists of an alpha4-beta1 integrin complex bound to paxillin.


viral RNA-directed RNA polymerase complex

A virus-specific protein complex that possesses RNA-dependent RNA polymerase activity and replicates the genome of an RNA virus.


myosin XV complex

A myosin complex containing a class XV myosin heavy chain and associated light chains. Myosin XV is single headed, and has a large extension (1200aa) at the N-terminus of the motor domain, two IQ motifs and a tail with a similar domain structure to that of the tail of myosin VII.


plasma membrane respiratory chain complex III

A part of the respiratory chain located in the plasma membrane, containing about 10 polypeptide subunits including four redox centers: cytochrome b/b6, cytochrome c1 and an 2Fe-2S cluster. Catalyzes the oxidation of ubiquinol by oxidized cytochrome c1. Examples of this component are found in bacterial species.


nuclear proteasome regulatory particle, base subcomplex

The subunits of the regulatory particle that directly associate with the core complex of a proteasome located in the nucleus of a cell.


cytosolic proteasome regulatory particle, base subcomplex

The subcomplex of the proteasome regulatory particle that directly associates with the proteasome core complex located in the cytosol of the cell.


exoribonuclease complex

A protein complex which is capable of exoribonuclease activity.


glutamate synthase complex (NADPH)

A complex that possesses glutamate synthase (NADPH) activity.


H-NS-Hha complex

A trimeric protein complex made up of an H-NS homodimer and an Hha monomer. In Enterobacteriaceae, this complex negatively regulates transcription of a range of genes.


succinate dehydrogenase complex

A multimeric complex which consists of flavoprotein (subunit A ; InterPro:IPR003952), iron-sulfur protein (subunit B) and membrane-bound cytochrome b560 (subunit C; InterPro:IPR000701). In some Archaea, the membrane-bound subunits (C or C and D) do not necessarily contain heme. Membrane-bound subunits can bind or react with quinones.


chloroplast ATP synthase complex

The protein complex that catalyzes the phosphorylation of ADP to ATP in chloroplasts.


alpha6-beta4 integrin-CD9 complex

A protein complex that consists of an alpha6-beta4 integrin complex bound to the cell surface protein CD9.


SUMO-targeted ubiquitin ligase complex

A nuclear ubiquitin ligase complex that specifically targets SUMOylated proteins; the complex is formed of homodimers or heterodimers of RNF4 family ubiquitin ligases and is conserved in eukaryotes.


dolichyl-phosphate-mannose-protein mannosyltransferase Pmt5p-Pmt3p dimer complex

A protein dimer complex that possesses dolichyl-phosphate-mannose-protein mannosyltransferase activity and, in S. cerevisiae, is composed of Pmt5p-Pmt3p.


CHD-type complex

A SWI/SNF-type complex that contains a subunit from the CHD(Chromodomain helicase DNA-binding) family. The CHD family is characterized by two signature sequence motifs: tandem chromodomains located in the N-terminal region, and the SNF2-like ATPase domain located in the central region of the protein structure.


viral portal complex

A multimeric ring of proteins through which the DNA enters and exits the viral capsid.


phosphatase complex

A protein complex which is capable of phosphatase activity.


sulfate adenylyltransferase complex (ATP)

An enzyme complex that catalyzes the formation adenylylsulfate from sulfate and ATP.


methyl accepting chemotaxis protein complex

A transmembrane protein complex that consists of multiple methyl-accepting chemoreceptor protein subunits, a histidine kinase and a connector protein and which functions in the regulation of flagellar rotary motor activity in response to an external chemical stimulus.


PKM2 protein kinase complex

A protein complex capable of phosphorylating a large number of protein targets. Contributes to cell proliferation under glycose starvation conditions. In human, the complex is present as a dimer.


glycine-tRNA ligase complex

A multimeric enzyme complex which, in bacteria, is usually a tetramer of two alpha and two beta chains and in eukaryotes, is usually a homodimer. Functions in the ligation of glycine and tRNA(Gly) to form glycyl-tRNA(Gly).


A complex that possesses dolichyl-phosphate-mannose-protein mannosyltransferase activity; usually includes members of the PMT1 and PMT2 protein subfamilies.


thrombospondin complex

A homotrimeric or homopentameric glycoprotein that functions at the interface of the cell membrane and the extracellular matrix through its interactions with proteins and proteoglycans, such as collagens, integrins and fibronectin, to regulate matrix structure and cellular behaviour.


A protein-lipid-RNA complex containing separate high-density lipoprotein (HDL), lipid and RNA molecules. Separate in this context means not covalently bound to each other.


FACIT collagen trimer

A collagen trimer that associates with collagen fibrils and consists of collagen monomers that contain two or more relatively short triple-helical domains connected by non-triple-helical sequences.


complex of collagen trimers

A complex of collagen trimers such as a fibril or collagen network.


alphaIIb-beta3 integrin-CD9 complex

A protein complex that consists of an alphaIIb-beta3 integrin complex bound to the cell surface protein CD9.


plastid-encoded plastid RNA polymerase complex A

A plastid-encoded DNA-directed RNA polymerase complex that resembles eubacterial multisubunit RNA polymerases, with a core composed of alpha, beta, and beta-prime subunits. An additional subunit, a sigma factor, is required for promoter recognition. PEP-A is generated from the PEP-B form during chloroplast maturation to generate a complex composed of at least thirteen polypeptides that is not sensitive to the antibiotic rifampicin, like its precursor form the PEP-B complex.