LiteFold/GO huggingface dataset:
CCR4-NOT complex (GO:0030014)
Namespace: cellular_component
Definition: The Ccr4-Not complex is an eukaryotically conserved deadenylase that can initiate cytoplasmic mRNA decay, and reduce translation by releasing poly(A)-binding protein (Pab1/PABPC1). Ccr4-Not contains seven core subunits, including two poly(A)-specific exonucleases, Ccr4/CNOT6/CNOT6L and Caf1/Pop2/CNOT7/CNOT8.
CCR4-NOT core complex (GO:0030015)
Namespace: cellular_component
Definition: The core of the CCR4-NOT complex. In Saccharomyces the CCR4-NOT core complex comprises Ccr4p, Caf1p, Caf40p, Caf130p, Not1p, Not2p, Not3p, Not4p, and Not5p.
myofibril (GO:0030016)
Namespace: cellular_component
Definition: The contractile element of skeletal and cardiac muscle; a long, highly organized bundle of actin, myosin, and other proteins that contracts by a sliding filament mechanism.
sarcomere (GO:0030017)
Namespace: cellular_component
Definition: The repeating unit of a myofibril in a muscle cell, composed of an array of overlapping thick and thin filaments between two adjacent Z discs.
Z disc (GO:0030018)
Namespace: cellular_component
Definition: Platelike region of a muscle sarcomere to which the plus ends of actin filaments are attached.
Synonyms: Z band; Z disk; Z line
obsolete tryptase activity (GO:0030019)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the preferential cleavage of Arg-Xaa, Lys-Xaa, but with more restricted specificity than trypsin.
Synonyms: lung tryptase activity; mast cell neutral proteinase activity; mast cell protease II activity; mast cell proteinase II; mast cell serine proteinase II; mast cell serine proteinase tryptase activity; mast cell tryptase activity; pituitary tryptase activity; rat mast cell protease II; skin tryptase activity; tryptase activity; tryptase M
Comment: This term was made obsolete because it represents a gene product.
extracellular matrix constituent conferring elasticity (GO:0030023)
Namespace: molecular_function
Definition: A component of the extracellular matrix that enables the matrix to recoil after transient stretching.
Synonyms: core extracellular matrix; core matrisome; elastin
Comment: Extracellular matrix elastin proteins may be annotated to this term. PMID:27009176, PMID:24443019
intracellular manganese ion homeostasis (GO:0030026)
Namespace: biological_process
Definition: A homeostatic process involved in the maintenance of a steady state level of manganese ions within a cell.
Synonyms: cellular manganese ion homeostasis; manganese homeostasis
lamellipodium (GO:0030027)
Namespace: cellular_component
Definition: A thin sheetlike process extended by the leading edge of a migrating cell or extending cell process; contains a dense meshwork of actin filaments.
actin filament-based process (GO:0030029)
Namespace: biological_process
Definition: Any cellular process that depends upon or alters the actin cytoskeleton, that part of the cytoskeleton comprising actin filaments and their associated proteins.
Synonyms: microfilament-based process
cell projection assembly (GO:0030031)
Namespace: biological_process
Definition: Formation of a prolongation or process extending from a cell, e.g. a flagellum or axon.
Synonyms: cell projection biogenesis; formation of a cell surface projection
lamellipodium assembly (GO:0030032)
Namespace: biological_process
Definition: Formation of a lamellipodium, a thin sheetlike extension of the surface of a migrating cell.
Synonyms: lamellipodium biogenesis; lamellipodium biosynthesis; lamellipodium formation
microvillar actin bundle assembly (GO:0030034)
Namespace: biological_process
Definition: Assembly of the parallel bundle of actin filaments at the core of a microvillus.
microspike assembly (GO:0030035)
Namespace: biological_process
Definition: Formation of a microspike, a dynamic, actin-rich projection extending from the surface of a migrating animal cell.
Synonyms: microspike biogenesis; microspike biosynthesis; microspike formation
Comment: Although in some literature 'microspike' and 'filopodium' are used synonymously, in GO microspike refers to a cell projection that is distinct from a filopodium. For the assembly of filopodia, use 'filopodium assembly ; GO:0046847'.
actin cytoskeleton organization (GO:0030036)
Namespace: biological_process
Definition: A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins.
Synonyms: actin cytoskeleton organisation; actin cytoskeleton organization and biogenesis; actin modulating activity
obsolete actin filament reorganization involved in cell cycle (GO:0030037)
Namespace: biological_process
Definition: OBSOLETE. The cell cycle process in which rearrangement of the spatial distribution of actin filaments and associated proteins occurs.
Synonyms: actin filament reorganisation involved in cell cycle; actin filament reorganization during cell cycle
Comment: This term was obsoleted because it is a pre-composed term.
contractile actin filament bundle assembly (GO:0030038)
Namespace: biological_process
Definition: Assembly of actin filament bundles in which the filaments are loosely packed (approximately 30-60 nm apart) and arranged with opposing polarities; the loose packing allows myosin (usually myosin-II) to enter the bundle.
obsolete DNA unwinding factor (GO:0030039)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: DNA unwinding factor
Comment: This term was made obsolete because it does not represent a true molecular function.
actin filament polymerization (GO:0030041)
Namespace: biological_process
Definition: Assembly of actin filaments by the addition of actin monomers to a filament.
Synonyms: actin polymerization; actin polymerizing activity
actin filament depolymerization (GO:0030042)
Namespace: biological_process
Definition: Disassembly of actin filaments by the removal of actin monomers from a filament.
Synonyms: actin depolymerization; actin depolymerizing activity
actin filament fragmentation (GO:0030043)
Namespace: biological_process
Definition: The severing of actin filaments into numerous short fragments, usually mediated by actin severing proteins.
parallel actin filament bundle assembly (GO:0030046)
Namespace: biological_process
Definition: Assembly of actin filament bundles in which the filaments are tightly packed (approximately 10-20 nm apart) and oriented with the same polarity.
actin filament-based movement (GO:0030048)
Namespace: biological_process
Definition: Movement of organelles or other particles along actin filaments, or sliding of actin filaments past each other, mediated by motor proteins.
muscle filament sliding (GO:0030049)
Namespace: biological_process
Definition: The sliding of actin thin filaments and myosin thick filaments past each other in muscle contraction. This involves a process of interaction of myosin located on a thick filament with actin located on a thin filament. During this process ATP is split and forces are generated.
vesicle transport along actin filament (GO:0030050)
Namespace: biological_process
Definition: Movement of a vesicle along an actin filament, mediated by motor proteins.
obsolete FK506-sensitive peptidyl-prolyl cis-trans isomerase (GO:0030051)
Namespace: molecular_function
Definition: OBSOLETE. Interacts selectively with the immunosuppressant FK506, and possesses peptidyl-prolyl isomerase activity (catalysis of the reaction: peptidoproline (omega=180) = peptidylproline (omega=0)).
Synonyms: FK506 binding protein; FK506-sensitive peptidyl-prolyl cis-trans isomerase; FKBP
Comment: This term was made obsolete because it represents a gene product and not a function.
obsolete parvulin (GO:0030052)
Namespace: molecular_function
Definition: OBSOLETE. A peptidyl-prolyl isomerase isolated from Escherichia coli. It does not have any function as an immunophilin.
Synonyms: parvulin
Comment: This term was made obsolete because it describes a gene product.
obsolete immunophilin (GO:0030053)
Namespace: molecular_function
Definition: OBSOLETE. Any member of a family of receptors that includes the major FK506 binding protein FKBP and cyclophilin. These two proteins are unrelated in amino-acid sequence, but both possess peptidyl-prolyl isomerase activity which is blocked by immunosuppressants that block signal-transduction pathways leading to T cell activation such as FK506 and rapamycin, which block FKBP, or cyclosporin A, which blocks cyclophilin.
Synonyms: immunophilin
Comment: This term was made obsolete because it does not represent a molecular function.
cell junction (GO:0030054)
Namespace: cellular_component
Definition: A cellular component that forms a specialized region of connection between two or more cells, or between a cell and the extracellular matrix, or between two membrane-bound components of a cell, such as flagella.
cell-substrate junction (GO:0030055)
Namespace: cellular_component
Definition: A cell junction that forms a connection between a cell and the extracellular matrix.
Synonyms: cell-matrix junction
hemidesmosome (GO:0030056)
Namespace: cellular_component
Definition: A cell-substrate junction (attachment structure) found in epithelial cells that links intermediate filaments to extracellular matrices via transmembrane complexes. In vertebrates, hemidesmosomes mediate contact between the basal side of epithelial cells and the basal lamina. In C. elegans, hemidesmosomes connect epithelial cells to distinct extracellular matrices on both the apical and basal cell surfaces.
Synonyms: epidermal attachment structure; fibrous organelle; hemi-adherens junction; trans-epithelial attachment
desmosome (GO:0030057)
Namespace: cellular_component
Definition: A cell-cell junction in which: on the cytoplasmic surface of each interacting plasma membrane is a dense plaque composed of a mixture of intracellular anchor proteins; a bundle of keratin intermediate filaments is attached to the surface of each plaque; transmembrane adhesion proteins of the cadherin family bind to the plaques and interact through their extracellular domains to hold the adjacent membranes together by a Ca2+-dependent mechanism.
Synonyms: macula adherens; spot desmosome
aliphatic amine dehydrogenase activity (GO:0030058)
Namespace: molecular_function
Definition: Catalysis of the reaction: an aliphatic amine + an acceptor (A) + H2O = an aldehyde + a reduced acceptor (AH2) + NH4+.
Synonyms: amine dehydrogenase activity; amine: (acceptor) oxidoreductase (deaminating); MADH activity; methylamine dehydrogenase activity; primary-amine dehydrogenase activity; primary-amine:acceptor oxidoreductase (deaminating)
aralkylamine dehydrogenase (azurin) activity (GO:0030059)
Namespace: molecular_function
Definition: Catalysis of the reaction: an aralkylamine + H2O + 2 oxidized [azurin] = an aromatic aldehyde + 2 H+ + NH4+ + 2 reduced [azurin].
Synonyms: aralkylamine:(azurin) oxidoreductase (deaminating) activity; aromatic amine dehydrogenase (azurin) activity
mitochondrial crista (GO:0030061)
Namespace: cellular_component
Definition: Any of the inward folds of the mitochondrial inner membrane. Their number, extent, and shape differ in mitochondria from different tissues and organisms. They appear to be devices for increasing the surface area of the mitochondrial inner membrane, where the enzymes of electron transport and oxidative phosphorylation are found. Their shape can vary with the respiratory state of the mitochondria.
Synonyms: cristae; mitochondrial cristae
Comment: See also the cellular component term 'mitochondrial inner membrane ; GO:0005743'.
obsolete mitochondrial tricarboxylic acid cycle enzyme complex (GO:0030062)
Namespace: cellular_component
Definition: OBSOLETE. Any of the heteromeric enzymes, located in the mitochondrion, that act in the tricarboxylic acid (TCA) cycle.
Synonyms: TCA cycle enzyme complex
Comment: The reason for obsoletion is that this term is unnecessarily taxon-specific.
obsolete murein sacculus (GO:0030063)
Namespace: cellular_component
Definition: OBSOLETE. A structure formed of the cross-linked polymer peptidoglycan (also called murein) that forms a covalently closed net around a bacterial cell, and imparts structural stability to the bacterial cell wall.
Synonyms: murein sacculus; peptidoglycan layer
Comment: This term was made obsolete because it was defined inaccurately.
obsolete cell wall inner membrane (GO:0030064)
Namespace: cellular_component
Definition: OBSOLETE. The peptidoglycan layer of the cell wall of Gram-negative bacteria.
Synonyms: cell wall inner membrane
Comment: This term was made obsolete because it was defined inaccurately.
obsolete cytochrome b6 (GO:0030066)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: cytochrome b-563; cytochrome b6
Comment: This term was made obsolete because it represents a gene product.
obsolete respiratory chain cytochrome b6 (GO:0030067)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: respiratory chain cytochrome b6
Comment: This term was made obsolete because it represents a gene product.
insulin processing (GO:0030070)
Namespace: biological_process
Definition: The formation of mature insulin by proteolysis of the precursor preproinsulin. The signal sequence is first cleaved from preproinsulin to form proinsulin; proinsulin is then cleaved to release the C peptide, leaving the A and B chains of mature insulin linked by disulfide bridges.
regulation of mitotic metaphase/anaphase transition (GO:0030071)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of the cell cycle process in which a cell progresses from metaphase to anaphase during mitosis, triggered by the activation of the anaphase promoting complex by Cdc20/Sleepy homolog which results in the degradation of Securin.
peptide hormone secretion (GO:0030072)
Namespace: biological_process
Definition: The regulated release of a peptide hormone from a cell.
insulin secretion (GO:0030073)
Namespace: biological_process
Definition: The regulated release of proinsulin from secretory granules accompanied by cleavage of proinsulin to form mature insulin. In vertebrates, insulin is secreted from B granules in the B cells of the vertebrate pancreas and from insulin-producing cells in insects.
obsolete thylakoid (sensu Proteobacteria) (GO:0030074)
Namespace: cellular_component
Definition: OBSOLETE. A thylakoid; as in, but not restricted to, the purple bacteria and relatives (Proteobacteria, ncbi_taxonomy_id:1224).
Synonyms: thylakoid (sensu Proteobacteria)
Comment: This term was made obsolete because thylakoids are not found in organisms of the Phylum Proteobacteria.
bacterial thylakoid (GO:0030075)
Namespace: cellular_component
Definition: A thylakoid that is derived from and attached to, but not necessarily continuous with, the plasma membrane, and is not enclosed in a plastid. It bears the photosynthetic pigments in photosynthetic cyanobacteria.
Synonyms: plasma membrane-derived thylakoid
light-harvesting complex (GO:0030076)
Namespace: cellular_component
Definition: A protein-pigment complex that may be closely or peripherally associated to photosynthetic reaction centers that participate in harvesting and transferring radiant energy to the reaction center.
Synonyms: antenna complex
plasma membrane light-harvesting complex (GO:0030077)
Namespace: cellular_component
Definition: A plasma membrane protein-pigment complex that may be closely or peripherally associated to photosynthetic reaction centers that participate in harvesting and transferring radiant energy to the reaction center. Examples of this complex are found in bacterial species.
light-harvesting complex, core complex (GO:0030078)
Namespace: cellular_component
Definition: Light harvesting complex associated with the reaction complex of photosynthetic purple bacteria.
light-harvesting complex, peripheral complex (GO:0030079)
Namespace: cellular_component
Definition: Bacteriochlorophyll a binding complex that is peripherally associated to the bacterial reaction center.
B800-820 antenna complex (GO:0030081)
Namespace: cellular_component
Definition: Protein-pigment complex that absorbs light at 800 and 820 nm; is peripherally associated to the bacterial reaction center; transfers excitation energy to the B875 antenna complex.
Synonyms: LH3 complex; light harvesting complex III
B800-850 antenna complex (GO:0030082)
Namespace: cellular_component
Definition: Protein-pigment complex that absorbs light at 800 and 850 nm; is peripherally associated to the bacterial reaction center; transfers excitation energy to the B875 antenna complex.
Synonyms: LH2 complex; light harvesting complex II
PSI associated light-harvesting complex I, LHCIa subcomplex (GO:0030083)
Namespace: cellular_component
Definition: A pigment protein complex that forms part of the photosystem I associated light-harvesting complex I; contains two proteins (usually about 24 and 21.5 kDa); has a fluorescence maximum between 680 and 690 nm.
PSI associated light-harvesting complex I, LHCIb subcomplex (GO:0030084)
Namespace: cellular_component
Definition: A pigment protein complex that forms part of the photosystem I associated light-harvesting complex I; contains two proteins (usually about 20 kDa); has a fluorescence maximum of 730 nm.
PSII associated light-harvesting complex II, peripheral complex, LHCIIb subcomplex (GO:0030085)
Namespace: cellular_component
Definition: A pigment protein complex that forms part of the photosystem II associated light-harvesting complex II; contains two proteins (usually about 28 and 27 kDa), and may contain a third; peripherally located relative to other LHC polypeptides.
obsolete PSII associated light-harvesting complex II, core complex, LHCIId subcomplex (GO:0030088)
Namespace: cellular_component
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: PSII associated light-harvesting complex II, core complex, LHCIId subcomplex
Comment: This term was made obsolete because the 'complex' it refers to contains only one gene product.
phycobilisome (GO:0030089)
Namespace: cellular_component
Definition: Any of the granules, approximately 32 nm x 48 nm and consisting of highly aggregated phycobiliproteins, that are attached in arrays to the external face of a thylakoid membrane in algae of the phyla Cyanophyta and Rhodophyta, where they function as light-harvesting devices in photosynthesis. Excitation energy in the phycobilisome flows in the sequence: phycoerythrin, phycocyanin, allophycocyanin before passing to the antenna chlorophyll of photosystem II.
obsolete regulation of flagellum assembly (GO:0030092)
Namespace: biological_process
Definition: OBSOLETE. Any process that modulates the frequency, rate or extent of the formation of a flagellum.
Synonyms: regulation of flagella assembly; regulation of flagella biogenesis; regulation of flagellum assembly; regulation of flagellum biogenesis
Comment: This term was made obsolete because microtubule-based flagellum (GO:0009434) and motile cilium (GO:0031514), as referenced by this term, were determined to be equivalent and merged. When a merge for this term was considered, it was noticed that both eukaryotic and prokaryotic proteins are annotated to it because its meaning had been ambiguous so obsoletion was considered safest.
plasma membrane-derived photosystem I (GO:0030094)
Namespace: cellular_component
Definition: A protein complex located in the plasma membrane-derived thylakoid. The photosystem functions as a light-dependent plastocyanin-ferredoxin oxidoreductase, transferring electrons from plastocyanin to ferredoxin. Examples of this complex are found in bacterial species.
Synonyms: plasma membrane photosystem I
plasma membrane-derived thylakoid photosystem II (GO:0030096)
Namespace: cellular_component
Definition: A protein complex, located in the membrane-derived thylakoid, containing the P680 reaction center. In the light, PSII functions as a water-plastoquinone oxidoreductase, transferring electrons from water to plastoquinone.
Synonyms: plasma membrane photosystem II
hemopoiesis (GO:0030097)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the myeloid and lymphoid derived organ/tissue systems of the blood and other parts of the body over time, from formation to the mature structure. The site of hemopoiesis is variable during development, but occurs primarily in bone marrow or kidney in many adult vertebrates.
Synonyms: blood cell biosynthesis; blood cell formation; haemopoiesis; hematopoiesis
lymphocyte differentiation (GO:0030098)
Namespace: biological_process
Definition: The process in which a relatively unspecialized precursor cell acquires specialized features of a lymphocyte. A lymphocyte is a leukocyte commonly found in the blood and lymph that has the characteristics of a large nucleus, a neutral staining cytoplasm, and prominent heterochromatin.
Synonyms: lymphocyte cell differentiation; lymphocyte development; lymphocytic blood cell differentiation
Comment: Note that immunologists typically use the word 'development' to refer to cells of B or T cell lineages undergoing the process that GO describes as 'cell differentiation'.
myeloid cell differentiation (GO:0030099)
Namespace: biological_process
Definition: The process in which a relatively unspecialized myeloid precursor cell acquires the specialized features of any cell of the myeloid leukocyte, megakaryocyte, thrombocyte, or erythrocyte lineages.
regulation of endocytosis (GO:0030100)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of endocytosis.
natural killer cell activation (GO:0030101)
Namespace: biological_process
Definition: The change in morphology and behavior of a natural killer cell in response to a cytokine, chemokine, cellular ligand, or soluble factor.
Synonyms: NK cell activation
vasopressin secretion (GO:0030103)
Namespace: biological_process
Definition: The regulated release of vasopressin from secretory granules into the blood.
obsolete water homeostasis (GO:0030104)
Namespace: biological_process
Definition: OBSOLETE. Any process involved in the maintenance of an internal steady state of water within an organism or cell.
Synonyms: osmoregulation; regulation of osmotic pressure
Comment: The reason for obsoletion is that this term does not specify whether the process is intracellular or organism-level.
obsolete anaphylaxis (GO:0030105)
Namespace: biological_process
Definition: OBSOLETE. Extreme immunological sensitivity of the body or tissues to the reintroduction of an antigen. It is a form of anamnestic reaction and is accompanied by pathological changes in tissues or organs due to the release of pharmacologically active substances.
Synonyms: anaphylaxis
Comment: This term was made obsolete because it represents a an abnormal process that is harmful to the organism.
obsolete MHC class I receptor activity (GO:0030106)
Namespace: molecular_function
Definition: OBSOLETE. A major histocompatibility complex class I receptor. These display processed antigens from the endocytosed bacteria. MHC class I proteins can form complexes with processed antigen peptides only if the antigen is synthesized in the same cell. As a consequence, T lymphocytes can only bind to class-I-positive cells that are synthesizing the antigen (e.g. virus-infected cells).
Synonyms: class I major histocompatibility complex antigen; major histocompatibility complex class I receptor; MHC class I receptor activity
Comment: This term was made obsolete because the definition is ambiguous and contains incorrect information. To update annotations of gene products that act as receptors for MHC class I protein complexes, use the molecular function term 'MHC class I receptor activity ; GO:0032393'; to update annotations of gene products which are components of MHC class I protein complexes, use the cellular component term 'MHC class I protein complex ; GO:0042612'.
HLA-A specific activating MHC class I receptor activity (GO:0030108)
Namespace: molecular_function
Definition: Combining with a MHC class I molecule of the HLA-A subclass to mediate signaling that activates a lymphocyte.