LiteFold/GO huggingface dataset:
DH domain binding (GO:0097161)
Namespace: molecular_function
Definition: Binding to a DH (Dbl homology) domain of a protein. The DH domain contains three structurally conserved regions separated by more variable regions. It is composed of 11 alpha helices that are folded into a flattened, elongated alpha-helix bundle in which two of the three conserved regions, conserved region 1 (CR1) and conserved region 3 (CR3), are exposed near the centre of one surface. CR1 and CR3, together with a part of alpha-6 and the DH/PH (pleckstrin homology) junction site, constitute the Rho GTPase interacting pocket.
MADS box domain binding (GO:0097162)
Namespace: molecular_function
Definition: Binding to a MADS box domain, a protein domain that encodes the DNA-binding MADS domain. The MADS domain binds to DNA sequences of high similarity to the motif CC[A/T]6GG termed the CArG-box. MADS-domain proteins are generally transcription factors. The length of the MADS-box is in the range of 168 to 180 base pairs.
sulfur carrier activity (GO:0097163)
Namespace: molecular_function
Definition: Covalently binding to sulfur and delivering it to an acceptor molecule.
obsolete ammonium ion metabolic process (GO:0097164)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving the ammonium ion.
Synonyms: ammonium ion metabolism; ammonium metabolic process
Comment: The reason for obsoletion is that this term was an unnecessary grouping term.
nuclear stress granule (GO:0097165)
Namespace: cellular_component
Definition: A dense aggregation in the nucleus composed of proteins and RNAs that appear when the cell is under stress.
lens epithelial cell proliferation (GO:0097166)
Namespace: biological_process
Definition: The multiplication or reproduction of lens epithelial cells, resulting in the expansion of a cell population. Lens epithelial cells make up the lens epithelium, which is located in the anterior portion of the lens between the lens capsule and the lens fibers and is a simple cuboidal epithelium. The epithelial cells of the lens regulate most of the homeostatic functions of the lens such as osmolarity and liquid volume. The lens epithelial cells also serve as the progenitors for new lens fibers. The lens epithelium constantly lays down fibers in the embryo, fetus, infant, and adult, and continues to lay down fibers for lifelong growth.
circadian regulation of translation (GO:0097167)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of mRNA translation with a regularity of approximately 24 hours.
Synonyms: regulation of mRNA translation in response to circadian clock
mesenchymal stem cell proliferation (GO:0097168)
Namespace: biological_process
Definition: The multiplication or reproduction of mesenchymal stem cells, resulting in the expansion of a stem cell population. A mesenchymal stem cell, or MSC, is a cell that retains the ability to divide and proliferate throughout life to provide progenitor cells that can differentiate into specialized mesenchymal cells.
Synonyms: MSC proliferation
AIM2 inflammasome complex (GO:0097169)
Namespace: cellular_component
Definition: An inflammasome complex that consists of AIM2, ASC, and caspase-1. AIM2 is a member of the HN-200 protein family that appears to be the sensor of cytosolic double-stranded DNA.
obsolete ADP-L-glycero-beta-D-manno-heptose metabolic process (GO:0097170)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving ADP-L-glycero-beta-D-manno-heptose, an ADP-L-glycero-D-manno-heptose having beta-configuration at the anomeric centre of the heptose. ADP-L-glycero-beta-D-manno-heptose (also called ADP-L-beta-D-heptose or ADP-L-glycero-D-manno-heptose) is a nucleotide-sugar precursor of the inner core lipopolysaccharide (LPS) from D-glycero-beta-D-manno-heptose 7-phosphate.
Synonyms: ADP-L-glycero-beta-D-manno-heptose metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
ADP-L-glycero-beta-D-manno-heptose biosynthetic process (GO:0097171)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the formation of ADP-L-glycero-beta-D-manno-heptose, an ADP-L-glycero-D-manno-heptose having beta-configuration at the anomeric centre of the heptose. ADP-L-glycero-beta-D-manno-heptose (also called ADP-L-beta-D-heptose or ADP-L-glycero-D-manno-heptose) is a nucleotide-sugar precursor of the inner core lipopolysaccharide (LPS) from D-glycero-beta-D-manno-heptose 7-phosphate.
Synonyms: ADP-L-glycero-beta-D-manno-heptose anabolism; ADP-L-glycero-beta-D-manno-heptose biosynthesis; ADP-L-glycero-beta-D-manno-heptose formation; ADP-L-glycero-beta-D-manno-heptose synthesis
N-acetylmuramic acid metabolic process (GO:0097172)
Namespace: biological_process
Definition: The chemical reactions and pathways involving N-acetylmuramic acid (MurNAc), a monosaccharide derivative of N-acetylglucosamine.
Synonyms: N-acetylmuramate metabolic process; N-acetylmuramate metabolism; N-acetylmuramic acid metabolism
N-acetylmuramic acid catabolic process (GO:0097173)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of N-acetylmuramic acid (MurNAc), a monosaccharide derivative of N-acetylglucosamine.
Synonyms: N-acetylmuramate breakdown; N-acetylmuramate catabolic process; N-acetylmuramate catabolism; N-acetylmuramate degradation; N-acetylmuramic acid breakdown; N-acetylmuramic acid catabolism; N-acetylmuramic acid degradation
obsolete 1,6-anhydro-N-acetyl-beta-muramic acid metabolic process (GO:0097174)
Namespace: biological_process
Definition: OBSOLETE. The chemical reactions and pathways involving 1,6-anhydro-N-acetyl-beta-muramic acid, the 1,6-anhydro-derivative of N-acetyl-beta-muramic acid.
Synonyms: 1,6-anhydro-N-acetyl-beta-muramate metabolic process; 1,6-anhydro-N-acetyl-beta-muramate metabolism; 1,6-anhydro-N-acetyl-beta-muramic acid metabolism; 1,6-anhydro-N-acetylmuramic acid metabolic process; 1,6-anhydro-N-acetylmuramic acid metabolism
Comment: This term was obsoleted because it is an unnecessary grouping class.
1,6-anhydro-N-acetyl-beta-muramic acid catabolic process (GO:0097175)
Namespace: biological_process
Definition: The chemical reactions and pathways resulting in the breakdown of 1,6-anhydro-N-acetylmuramic acid, the 1,6-anhydro-derivative of N-acetyl-beta-muramic acid.
Synonyms: 1,6-anhydro-N-acetyl-beta-muramate breakdown; 1,6-anhydro-N-acetyl-beta-muramate catabolic process; 1,6-anhydro-N-acetyl-beta-muramate catabolism; 1,6-anhydro-N-acetyl-beta-muramate degradation; 1,6-anhydro-N-acetyl-beta-muramic acid breakdown; 1,6-anhydro-N-acetyl-beta-muramic acid catabolism; 1,6-anhydro-N-acetyl-beta-muramic acid degradation; 1,6-anhydro-N-acetylmuramate breakdown; 1,6-anhydro-N-acetylmuramate catabolic process; 1,6-anhydro-N-acetylmuramate catabolism; 1,6-anhydro-N-acetylmuramate degradation; 1,6-anhydro-N-acetylmuramic acid breakdown; 1,6-anhydro-N-acetylmuramic acid catabolic process; 1,6-anhydro-N-acetylmuramic acid catabolism; 1,6-anhydro-N-acetylmuramic acid degradation
epoxide metabolic process (GO:0097176)
Namespace: biological_process
Definition: The chemical reactions and pathways involving epoxides, compounds in which an oxygen atom is directly attached to two adjacent or non-adjacent carbon atoms of a carbon chain or ring system; thus cyclic ethers.
Synonyms: epoxide metabolism
mitochondrial ribosome binding (GO:0097177)
Namespace: molecular_function
Definition: Binding to a mitochondrial ribosome.
ruffle assembly (GO:0097178)
Namespace: biological_process
Definition: The aggregation, arrangement and bonding together of a set of components to form a ruffle, a projection at the leading edge of a crawling cell; the protrusions are supported by a microfilament meshwork. The formation of ruffles (also called membrane ruffling) is thought to be controlled by a group of enzymes known as Rho GTPases, specifically RhoA, Rac1 and cdc42.
Synonyms: membrane ruffle formation; membrane ruffling
protease inhibitor complex (GO:0097179)
Namespace: cellular_component
Definition: A heterodimeric protein complex that contains a protease inhibitor and a protease; formation of the complex inhibits protease activity.
Synonyms: peptidase inhibitor complex
serine protease inhibitor complex (GO:0097180)
Namespace: cellular_component
Definition: A heterodimeric protein complex that contains a serine protease inhibitor and a protease; formation of the complex inhibits serine protease activity.
Synonyms: serine-type endopeptidase inhibitor complex; serpin complex
protein C inhibitor-coagulation factor V complex (GO:0097181)
Namespace: cellular_component
Definition: A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and coagulation factor V (F5); formation of the complex inhibits the serine protease activity of coagulation factor V.
Synonyms: PCI-coagulation factor V complex; plasma serine protease inhibitor-coagulation factor V complex; protein C inhibitor-F5 complex; serpin A5-coagulation factor V complex; SERPINA5-coagulation factor V complex
protein C inhibitor-coagulation factor Xa complex (GO:0097182)
Namespace: cellular_component
Definition: A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and coagulation factor Xa (F10); formation of the complex inhibits the serine protease activity of coagulation factor Xa.
Synonyms: PCI-coagulation factor Xa complex; plasma serine protease inhibitor-coagulation factor Xa complex; serpin A5-coagulation factor Xa complex; SERPINA5-coagulation factor Xa complex
protein C inhibitor-coagulation factor XI complex (GO:0097183)
Namespace: cellular_component
Definition: A heterodimeric protein complex that contains protein C inhibitor (SERPINA5) and coagulation factor XI (F11); formation of the complex inhibits the serine protease activity of coagulation factor XI.
Synonyms: PCI-coagulation factor XI complex; plasma serine protease inhibitor-coagulation factor XI complex; protein C inhibitor-F11 complex; serpin A5-coagulation factor XI complex; SERPINA5-coagulation factor XI complex
response to azide (GO:0097184)
Namespace: biological_process
Definition: 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 an azide stimulus.
cellular response to azide (GO:0097185)
Namespace: biological_process
Definition: 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 an azide stimulus.
amelogenesis (GO:0097186)
Namespace: biological_process
Definition: The process whose specific outcome is the formation of tooth enamel, occurring in two stages: secretory stage and maturation stage.
Synonyms: enamel development
dentinogenesis (GO:0097187)
Namespace: biological_process
Definition: The process whose specific outcome is the formation of dentin, the mineralized tissue that constitutes the major bulk of teeth. Dentin may be one of three types: primary dentin, secondary dentin, and tertiary dentin.
Synonyms: dentin development; dentine development
dentin mineralization (GO:0097188)
Namespace: biological_process
Definition: The process in which calcium salts are deposited into the calcareous tooth structure known as dentin.
Synonyms: dentine mineralization
apoptotic body (GO:0097189)
Namespace: cellular_component
Definition: A vesicle containing parts of a dying cell. Apoptotic bodies can be formed during the execution phase of the apoptotic process, when the cell's cytoskeleton breaks up and causes the membrane to bulge outward. These bulges may separate from the cell, taking a portion of cytoplasm with them, to become apoptotic bodies. These are then engulfed by phagocytic cells, and their components recycled. Apoptotic bodies may range in size from 0.8 to 5um.
Synonyms: apoptotic bleb; apoptotic vesicle
apoptotic signaling pathway (GO:0097190)
Namespace: biological_process
Definition: The series of molecular signals which triggers the apoptotic death of a cell. The pathway starts with reception of a signal, and ends when the execution phase of apoptosis is triggered.
Synonyms: apoptotic signalling pathway; induction of apoptosis by extracellular signals
Comment: This term can be used to annotate gene products involved in apoptotic events happening downstream of the cross-talk point between the extrinsic and intrinsic apoptotic pathways. The cross-talk starts when caspase-8 cleaves Bid and truncated Bid interacts with mitochondria. From this point on it is not possible to distinguish between extrinsic and intrinsic pathways.
extrinsic apoptotic signaling pathway (GO:0097191)
Namespace: biological_process
Definition: The series of molecular signals in which a signal is conveyed from the cell surface to trigger the apoptotic death of a cell. The pathway starts with either a ligand binding to a cell surface receptor, or a ligand being withdrawn from a cell surface receptor (e.g. in the case of signaling by dependence receptors), and ends when the execution phase of apoptosis is triggered.
Synonyms: death receptor-mediated apoptosis; extrinsic apoptosis; extrinsic apoptotic pathway; extrinsic apoptotic signaling pathway in presence of ligand; extrinsic apoptotic signalling pathway
Comment: Fas acts as a death receptor with a role in apoptosis, but can also act as a non-apoptotic signal transducer.
extrinsic apoptotic signaling pathway in absence of ligand (GO:0097192)
Namespace: biological_process
Definition: The series of molecular signals in which a signal is conveyed from the cell surface to trigger the apoptotic death of a cell. The pathway starts with withdrawal of a ligand from a cell surface receptor, and ends when the execution phase of apoptosis is triggered.
Synonyms: dependence receptor signaling pathway; extrinsic apoptosis in absence of ligand; extrinsic apoptotic signalling pathway in absence of ligand
Comment: For dependence receptors, absence of a ligand or withdrawal of a ligand from a receptor acts as a signal. An example of 'extrinsic apoptotic signaling pathway in absence of ligand' is withdrawal of a growth factor such as NGF, even if traditionally apoptosis induced via growth factor withdrawal has been classified as an instance of intrinsic apoptosis. See an example in PMID:19767770. Ligands whose withdrawal or absence induce apoptosis should be annotated to GO:2001239 'regulation of extrinsic apoptotic signaling pathway in absence of ligand', rather than to the pathway term itself. Examples of gene products that may be annotated to GO:0097192 'extrinsic apoptotic signaling pathway in absence of ligand' include dependence receptors such as DCC or UNC5B, which relay lethal signals in the absence of their ligand (netrin-1). In the case of DCC and UNC5B, the signaling proceeds through the assembly of a DRAL- and TUCAN- (or NLRP1-) containing caspase-9-activating complex or by the dephosphorylation-mediated activation of death-associated protein kinase 1 (DAPK1) by UNC5B-bound protein phosphatase 2A (PP2A), respectively. DAPK1 can mediate the direct activation of executioner caspases or favor MOMP (reviewed in PMID:21760595). Also see PMID:21172653 (annotations to UNC5B and PR65beta, UniProt symbols O08722, PPP2R1B and P30154).
intrinsic apoptotic signaling pathway (GO:0097193)
Namespace: biological_process
Definition: The series of molecular signals in which an intracellular signal is conveyed to trigger the apoptotic death of a cell. The pathway starts with reception of an intracellular signal (e.g. DNA damage, endoplasmic reticulum stress, oxidative stress etc.), and ends when the execution phase of apoptosis is triggered. The intrinsic apoptotic signaling pathway is crucially regulated by permeabilization of the mitochondrial outer membrane (MOMP).
Synonyms: induction of apoptosis by intracellular signals; intrinsic apoptosis; intrinsic apoptotic pathway; intrinsic apoptotic signalling pathway; mitochondrial-mediated apoptotic pathway
Comment: The signals that start intrinsic apoptosis may come from extracellular sources (e.g. oxidative stress, UV exposure), but the reception of the signal and thus the signaling pathway start inside the cell (as a result of DNA damage, redox imbalance, etc.). Examples are ZPR9 (ZNF622) and ASK1 (MAP3K5) (UniProt symbols Q969S3 and Q99683) in PMID:21771788. A diagram of the intrinsic apoptotic pathway including examples of molecular players can be found in Figure 2 in PMID:21760595.
pilomotor reflex (GO:0097195)
Namespace: biological_process
Definition: The reflex process in which the arrectores pilorum (hair follicle) muscles contract and cause the hair to stand erect.
Synonyms: goosebump reflex; horripilation; piloerection
Shu complex (GO:0097196)
Namespace: cellular_component
Definition: A protein complex involved in error-free DNA post-replication repair (PRR). In Saccharomyces cerevisiae the complex contains Csm2p, Psy3p, Shu1p, and Shu2p.
obsolete histone H3-K36 trimethylation (GO:0097198)
Namespace: biological_process
Definition: OBSOLETE. The modification of histone H3 by addition of three methyl groups to lysine at position 36 of the histone.
Comment: This term was obsoleted because it represents a molecular function.
obsolete cysteine-type endopeptidase activity involved in execution phase of apoptosis (GO:0097200)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile, and contributing to the execution phase of apoptosis.
Synonyms: effector caspase activity; executioner caspase activity
Comment: Examples of gene products that may be annotated to this term include CASP3, CASP6 and CASP7, also called effector (or executioner) caspases.\nThe reason for obsoletion is that this term represents a GO-CAM model.
obsolete negative regulation of transcription from RNA polymerase II promoter in response to stress (GO:0097201)
Namespace: biological_process
Definition: OBSOLETE. Any process that decreases the frequency, rate or extent of transcription from an RNA polymerase II promoter as a result of a stimulus indicating the organism is under stress. The stress is usually, but not necessarily, exogenous (e.g. temperature, humidity, ionizing radiation).
Comment: This term was obsoleted because it represents a GO-CAM model.
phagocytic cup lip (GO:0097203)
Namespace: cellular_component
Definition: The tip or margin of the progressing circular lamella that engulfs a particle during phagocytosis. When the two lips of the cup fuse it is converted into a phagosome.
phagocytic cup base (GO:0097204)
Namespace: cellular_component
Definition: The older part of the phagocytic cup where the actin cytoskeleton disassembles, allowing early incoming and outgoing vesicular trafficking.
renal filtration (GO:0097205)
Namespace: biological_process
Definition: A renal system process in which fluid circulating through the body is filtered through a barrier system.
nephrocyte filtration (GO:0097206)
Namespace: biological_process
Definition: The process by which hemolymph is filtered based on size and charge through a nephrocyte filtration barrier formed by the basement membrane and nephrocyte diaphragm.
bud dormancy process (GO:0097207)
Namespace: biological_process
Definition: A dormancy process in which dormancy (sometimes called a dormant state) is induced, maintained or broken in a bud. Bud dormancy is a suspension of most physiological activity and growth that can be reactivated. It may be a response to environmental conditions such as seasonality or extreme heat, drought, or cold. The exit from bud dormancy is marked by the resumed growth of the bud.
Synonyms: bud dormancy
Comment: Bud dormancy may precede dormancy of the whole plant.
alveolar lamellar body (GO:0097208)
Namespace: cellular_component
Definition: A specialized secretory organelle found in type II pneumocytes and involved in the synthesis, secretion, and reutilization of pulmonary surfactant.
epidermal lamellar body (GO:0097209)
Namespace: cellular_component
Definition: A specialized secretory organelle found in keratinocytes and involved in the formation of an impermeable, lipid-containing membrane that serves as a water barrier and is required for correct skin barrier function.
response to gonadotropin-releasing hormone (GO:0097210)
Namespace: biological_process
Definition: 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 gonadotropin-releasing hormone stimulus. Gonadotropin-releasing hormone (GnRH) is a peptide hormone responsible for the release of follicle-stimulating hormone (FSH) and luteinizing hormone (LH) from the anterior pituitary. GnRH is synthesized and released by the hypothalamus.
Synonyms: response to GnRH
cellular response to gonadotropin-releasing hormone (GO:0097211)
Namespace: biological_process
Definition: 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 gonadotropin-releasing hormone stimulus. Gonadotropin-releasing hormone (GnRH) is a peptide hormone responsible for the release of follicle-stimulating hormone (FSH) and luteinizing hormone (LH) from the anterior pituitary. GnRH is synthesized and released by the hypothalamus.
Synonyms: cellular response to GnRH; cellular response to gonadotrophin-releasing hormone
lysosomal membrane organization (GO:0097212)
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 a lysosomal membrane. A lysosomal membrane is the lipid bilayer surrounding the lysosome and separating its contents from the cell cytoplasm.
Synonyms: lysosomal membrane organisation; lysosome membrane organization
regulation of lysosomal membrane permeability (GO:0097213)
Namespace: biological_process
Definition: Any process that modulates the frequency, rate or extent of the passage or uptake of molecules by the lysosomal membrane.
Synonyms: regulation of lysosome membrane permeability
negative regulation of lysosomal membrane permeability (GO:0097215)
Namespace: biological_process
Definition: Any process that decreases the frequency, rate or extent of the passage or uptake of molecules by the lysosomal membrane.
Synonyms: negative regulation of lysosome membrane permeability
sieve area (GO:0097217)
Namespace: cellular_component
Definition: A pit-like area in the cell wall of a sieve element; contains pores lined with callose and occupied by strands of protoplasmic material that interconnect the protoplasts of contiguous sieve elements.
Comment: Part of a sieve element (PO:0025406).
sieve plate (GO:0097218)
Namespace: cellular_component
Definition: A part of the cell wall of a sieve tube member that bears one or more highly specialized sieve areas.
Comment: Typical of angiosperms. Part of sieve tube member (PO:0000289).
compound sieve plate (GO:0097219)
Namespace: cellular_component
Definition: A sieve plate that contains several specialized sieve areas in either a scalariform or reticulate arrangement.
Comment: Often located on an end wall of a sieve tube member. Unspecialized sieve areas may occur on other parts of the cell.
simple sieve plate (GO:0097220)
Namespace: cellular_component
Definition: A sieve plate that contains a single specialized sieve area.
Comment: Often located on an end wall of a sieve tube member. Unspecialized sieve areas may occur on other parts of the cell.