LiteFold/GO huggingface dataset:
obsolete RNA polymerase II transcription termination factor activity (GO:0003717)
Namespace: molecular_function
Definition: OBSOLETE. Any activity that brings about termination of transcription by RNA polymerase II.
Synonyms: Pol II transcription termination factor activity; RNA polymerase II transcription termination factor activity
Comment: This term was obsoleted because it is essentially identical to a Process term (specifically the Biological Process term which has been selected as a term to consider for reannotation), i.e. it is defined only in terms of the process it acts in and it does NOT convey any information about the molecular nature of the function or whether the function is based on binding DNA, on interacting with other proteins, or some other mechanism. To transfer all annotations without review, the BP term indicated is considered to be equivalent and thus the only appropriate destination for all annotations. To reannotate to a MF term, you will probably need to revisit the original literature or other primary data because this "MF" term was not defined in terms of mechanism of action and there are multiple possibilities in the revised MF structure. In reannotation, please also consider descendent terms of the suggested MF terms as a more specific term may be more appropriate than the MF terms indicated. Please be aware that you may wish to request a new term if the mechanism of action of this gene product is not yet represented or if you are annotating for an RNAP different than one for which there is a specific suggested term. Also note that if there is no information about how the gene product acts, it may be appropriate to annotate to the root term for molecular_function.
obsolete transcription factor binding, cytoplasmic sequestering (GO:0003719)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: transcription factor binding, cytoplasmic sequestering
Comment: This term was made obsolete because sequestering is a process rather than a function.
telomerase activity (GO:0003720)
Namespace: molecular_function
Definition: Catalysis of the reaction: a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) = diphosphate + DNA(n+1) using an internal RNA template that encodes the telomeric repeat sequence.
Synonyms: telomerase RNA reverse transcriptase activity; telomerase, catalyst
obsolete telomerase RNA reverse transcriptase activity (GO:0003721)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the extension of the 3' end of a DNA strand by one deoxynucleotide at a time. Cannot initiate a chain de novo; uses the RNA subunit of the telomerase enzyme complex as its template.
Synonyms: telomerase, catalyst
Comment: This term was obsoleted because it represents the same activity as telomerase activity ; GO:0003720.
RNA binding (GO:0003723)
Namespace: molecular_function
Definition: Binding to an RNA molecule or a portion thereof.
Synonyms: base pairing with RNA; poly(A) RNA binding; poly(A)-RNA binding; poly-A RNA binding
RNA helicase activity (GO:0003724)
Namespace: molecular_function
Definition: Unwinding of an RNA helix, driven by ATP hydrolysis.
Synonyms: ATP-dependent RNA helicase activity
double-stranded RNA binding (GO:0003725)
Namespace: molecular_function
Definition: Binding to double-stranded RNA.
Synonyms: dsRNA binding
double-stranded RNA adenosine deaminase activity (GO:0003726)
Namespace: molecular_function
Definition: Catalysis of the reaction: adenosine + H2O = inosine + NH4+, in a double-stranded RNA molecule.
Synonyms: double-stranded RNA specific editase activity
single-stranded RNA binding (GO:0003727)
Namespace: molecular_function
Definition: Binding to single-stranded RNA.
Synonyms: ssRNA binding
mRNA binding (GO:0003729)
Namespace: molecular_function
Definition: Binding to messenger RNA (mRNA), an intermediate molecule between DNA and protein. mRNA includes UTR and coding sequences, but does not contain introns.
Synonyms: base pairing with mRNA
mRNA 3'-UTR binding (GO:0003730)
Namespace: molecular_function
Definition: Binding to a 3' untranslated region of an mRNA molecule.
Synonyms: mRNA 3' UTR binding
obsolete mRNA cap binding (GO:0003731)
Namespace: molecular_function
Definition: OBSOLETE. Interacting selectively with the 7-methylguanosine cap at the 5' end of a nascent messenger RNA transcript.
Synonyms: mRNA cap binding
Comment: This term was made obsolete because the functional distinction for cap binding is the structure of the cap, not the type of RNA it is attached to.
obsolete snRNA cap binding (GO:0003732)
Namespace: molecular_function
Definition: OBSOLETE. Interacting selectively with the cap structure at the 5' end of a small nuclear RNA molecule.
Synonyms: snRNA cap binding
Comment: This term was made obsolete because the functional distinction for cap binding is the structure of the cap, not the type of RNA it is attached to.
obsolete ribonucleoprotein (GO:0003733)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: ribonucleoprotein
Comment: This term was made obsolete because it describes a cellular component rather than a molecular function.
obsolete small nuclear ribonucleoprotein (GO:0003734)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: small nuclear ribonucleoprotein; snRNP
Comment: This term was made obsolete because it describes a cellular component rather than a molecular function.
structural constituent of ribosome (GO:0003735)
Namespace: molecular_function
Definition: The action of a molecule that contributes to the structural integrity of the ribosome.
Synonyms: ribosomal protein; ribosomal RNA
Comment: Note that this term may be used to annotate ribosomal RNAs as well as ribosomal proteins.
translation initiation factor activity (GO:0003743)
Namespace: molecular_function
Definition: Functions in the initiation of ribosome-mediated translation of mRNA into a polypeptide.
translation elongation factor activity (GO:0003746)
Namespace: molecular_function
Definition: Functions in chain elongation during polypeptide synthesis at the ribosome.
translation release factor activity (GO:0003747)
Namespace: molecular_function
Definition: Involved in catalyzing the release of a nascent polypeptide chain from a ribosome.
obsolete chaperone activity (GO:0003754)
Namespace: molecular_function
Definition: OBSOLETE. Assists in the correct non-covalent assembly of polypeptide-containing structures in vivo, but is not a component of these assembled structures when they are performing their normal biological function.
Synonyms: chaperone activity
Comment: This term was made obsolete because, as defined, it represents a class of gene products rather than a molecular function. The term string is also ambiguous, having connotations of involvement in transport processes.
peptidyl-prolyl cis-trans isomerase activity (GO:0003755)
Namespace: molecular_function
Definition: Catalysis of the reaction: peptidyl-proline (omega=180) = peptidyl-proline (omega=0).
Synonyms: cis-trans proline isomerase activity; cyclophilin activity; cyclophilin-type peptidyl-prolyl cis-trans isomerase activity; FK506-sensitive peptidyl-prolyl cis-trans isomerase; immunophilin; juglone-sensitive cis-trans proline isomerase activity; juglone-sensitive peptidyl-prolyl cis-trans isomerase activity; parvulin; peptide bond isomerase activity; peptidyl-prolyl isomerase B reaction; peptidylproline cis-trans-isomerase activity; peptidylprolyl cis-trans isomerase activity; peptidylprolyl isomerase activity; PPIase activity; rotamase activity
protein disulfide isomerase activity (GO:0003756)
Namespace: molecular_function
Definition: Catalysis of the rearrangement of both intrachain and interchain disulfide bonds in proteins.
Synonyms: disulphide bond formation; protein cysteine-thiol oxidation; protein disulfide-isomerase; protein disulphide isomerase activity; protein thiol-disulfide exchange; protein thiol-disulphide exchange; S-S rearrangase activity
obsolete glycoprotein-specific chaperone activity (GO:0003759)
Namespace: molecular_function
Definition: OBSOLETE. Assists in the correct, non-covalent assembly of glycoproteins in vivo, but is not a component of the assembled structures when performing its normal biological function. Utilizes a lectin site as a means to associate with the unfolded glycoproteins.
Synonyms: glycoprotein-specific chaperone activity
Comment: This term was made obsolete because it represents a class of gene products and a biological process rather than a molecular function.
obsolete histone-specific chaperone activity (GO:0003762)
Namespace: molecular_function
Definition: OBSOLETE. Assists in chromatin assembly by chaperoning histones on to replicating DNA, but is not a component of the assembled nucleosome when performing its normal biological function.
Synonyms: histone-specific chaperone activity; nucleosome assembly chaperone
Comment: This term was made obsolete because it represents a class of gene products and a biological process rather than a molecular function.
obsolete chaperonin ATPase activity (GO:0003763)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: ATP + H2O = ADP + phosphate. The hydrolysis of ATP involved in maintaining an unfolded polypeptide structure before folding or to entry into mitochondria and chloroplasts.
Synonyms: chaperonin; chaperonin ATPase activity
Comment: This term was made obsolete because it represents a class of gene products, and its definition incorporates process information.
obsolete co-chaperonin activity (GO:0003772)
Namespace: molecular_function
Definition: OBSOLETE. Co-chaperonins are proteins that bind to chaperones and this complex then folds misfolded proteins. Co-chaperonins by themselves do not possess chaperone activity.
Synonyms: co-chaperonin activity
Comment: This term was made obsolete because it represents a class of gene products rather than a molecular function.
obsolete heat shock protein activity (GO:0003773)
Namespace: molecular_function
Definition: OBSOLETE. Any of a group of specific proteins that are synthesized by both prokaryotic and eukaryotic cells after they have been exposed to a temperature that is higher than normal. Other stresses, e.g. free radical damage, have a similar effect. Many members of the hsp family are not induced but are present in all cells. They are characterized by their role as molecular chaperones.
Synonyms: heat shock protein activity
Comment: This term was made obsolete because it represents a class of gene products rather than a molecular function.
cytoskeletal motor activity (GO:0003774)
Namespace: molecular_function
Definition: Generation of force resulting in movement, for example along a microfilament or microtubule, or in torque resulting in membrane scission or rotation of a flagellum. The energy required is obtained either from the hydrolysis of a nucleoside triphosphate or by an electrochemical proton gradient (proton-motive force).
Synonyms: motor activity
obsolete axonemal motor activity (GO:0003775)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: axonemal motor activity
Comment: This term was made obsolete because it includes cellular component information.
obsolete muscle motor activity (GO:0003776)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: muscle motor activity
Comment: This term was made obsolete because it includes anatomy information.
microtubule motor activity (GO:0003777)
Namespace: molecular_function
Definition: A motor activity that generates movement along a microtubule, driven by ATP hydrolysis.
Synonyms: ATP-dependent microtubule motor activity; axonemal motor activity; dynein; dynein ATPase activity; kinesin; kinesin motor activity; kinetochore motor activity
Comment: Consider also annotating to the molecular function term 'microtubule binding ; GO:0008017'.
obsolete dynactin motor (GO:0003778)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: dynactin motor
Comment: This term was made obsolete because the dynactin complex is not a motor as such, but does regulate the dynein motor complex.
actin binding (GO:0003779)
Namespace: molecular_function
Definition: Binding to monomeric or multimeric forms of actin, including actin filaments.
Synonyms: membrane associated actin binding
obsolete actin cross-linking activity (GO:0003780)
Namespace: molecular_function
Definition: OBSOLETE. Interacting selectively with two actin filaments to anchor them together.
Synonyms: actin cross-linking activity
Comment: This term was made obsolete because it represents a combination of molecular functions.
obsolete actin bundling activity (GO:0003781)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: actin bundling activity
Comment: This term was made obsolete because it represents a biological process.
obsolete F-actin capping activity (GO:0003782)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: F-actin capping activity
Comment: This term was made obsolete because it describes a biological process.
obsolete barbed-end actin capping activity (GO:0003783)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: barbed-end actin capping activity
Comment: This term was made obsolete because it describes a biological process.
obsolete barbed-end actin capping/severing activity (GO:0003784)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: barbed-end actin capping/severing activity
Comment: This term was made obsolete because it describes two biological processes.
actin monomer binding (GO:0003785)
Namespace: molecular_function
Definition: Binding to monomeric actin, also known as G-actin.
Synonyms: G actin binding
actin lateral binding (GO:0003786)
Namespace: molecular_function
Definition: Binding to an actin filament along its length.
obsolete actin depolymerizing activity (GO:0003787)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: actin depolymerizing activity
Comment: This term was made obsolete because it represents a biological process.
actin monomer sequestering activity (GO:0003788)
Namespace: molecular_function
Definition: Binding to an actin monomer to prevent it from interacting with other partners or to inhibit its localization to the area of the cell or complex where it is active.
actin filament severing activity (GO:0003789)
Namespace: molecular_function
Definition: Binding to an actin subunit and promoting its dissociation from an actin filament by a local change in actin subunit conformation and orientation, and severing of filaments.
Synonyms: actin depolymerizing activity
obsolete actin modulating activity (GO:0003790)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: actin modulating activity
Comment: This term was made obsolete because it does not make sense.
obsolete membrane associated actin binding (GO:0003791)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: membrane associated actin binding
Comment: This term was made obsolete because it contains both component and function information.
obsolete regulation of actin thin filament length activity (GO:0003792)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: regulation of actin thin filament length activity
Comment: This term was made obsolete because the term belongs in the process ontology.
obsolete defense/immunity protein activity (GO:0003793)
Namespace: molecular_function
Definition: OBSOLETE. Any activity that plays a role in the defense/immune response of an organism against infection and disease.
Synonyms: defence/immunity protein activity; defense/immunity protein activity
Comment: This term was made obsolete because it refers to involvement in a biological process.
obsolete acute-phase response protein activity (GO:0003794)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: acute-phase response protein activity
Comment: This term was made obsolete because it refers to involvement in a biological process.
obsolete antimicrobial peptide activity (GO:0003795)
Namespace: molecular_function
Definition: OBSOLETE. Inhibits the growth of, or directly kills, microbial cells.
Synonyms: antimicrobial peptide activity
Comment: This term was made obsolete because it describes involvement in a process and not a function.
lysozyme activity (GO:0003796)
Namespace: molecular_function
Definition: Catalysis of the hydrolysis of the beta-(1->4) linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan.
Synonyms: 1,4-N-acetylmuramidase activity; globulin G; globulin G1; L-7001; lysozyme g; mucopeptide glucohydrolase activity; mucopeptide N-acetylmuramoylhydrolase activity; muramidase activity; N,O-diacetylmuramidase activity; peptidoglycan N-acetylmuramoylhydrolase activity; PR1-lysozyme
obsolete male-specific antibacterial peptide activity (GO:0003798)
Namespace: molecular_function
Definition: OBSOLETE. Inhibits the growth of, or directly kills, bacterial cells, but which is only expressed in males.
Synonyms: male-specific antibacterial peptide activity
Comment: This term was made obsolete because it describes involvement in a process and not a function.
obsolete antifungal peptide activity (GO:0003799)
Namespace: molecular_function
Definition: OBSOLETE. Inhibits the growth of, or directly kills, fungal cells.
Synonyms: antifungal peptide activity
Comment: This term was made obsolete because it describes involvement in a process and not a function.
obsolete blood coagulation factor activity (GO:0003801)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: blood coagulation factor activity
Comment: This term was made obsolete because it refers to involvement in a biological process.
obsolete coagulation factor VIIa activity (GO:0003802)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the selective cleavage of one Arg-Ile bond in factor X to form factor Xa, and on factor IX to form factor IXa beta.
Synonyms: activated blood coagulation factor VII; blood coagulation factor VII activity; blood-coagulation factor VIIa; coagulation factor VIIa activity
Comment: This term was made obsolete because it represents a gene product.
obsolete coagulation factor IXa activity (GO:0003803)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the selective cleavage of the Arg-Ile bond in factor X to form factor Xa.
Synonyms: activated blood coagulation factor XI; activated blood-coagulation factor IX; activated christmas factor; autoprothrombin II; blood coagulation factor IX activity; blood platelet cofactor II; blood-coagulation factor IXa; Christmas factor activity; coagulation factor IXa activity
Comment: This term was made obsolete because it represents a gene product.
obsolete coagulation factor Xa activity (GO:0003804)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the preferential cleavage of Arg-Thr and then Arg-Ile bonds in prothrombin to form thrombin, and on factor VII, which it converts to a two-chain form (factor VIIa).
Synonyms: activated blood-coagulation factor X; activated factor X; activated Stuart-Prower factor; autoprothrombin C; blood coagulation factor X activity; coagulation factor Xa activity; factor Xa; plasma thromboplastin; prothrombase activity; prothrombinase activity; Stuart factor; Stuart factor activity; thrombokinase activity; thromboplastin
Comment: This term was made obsolete because it represents a gene product.
obsolete coagulation factor XIa activity (GO:0003805)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the selective cleavage of Arg-Ala and Arg-Val bonds in factor IX to form factor IXa.
Synonyms: activated blood-coagulation factor XI; activated plasma thromboplastin antecedent; blood coagulation factor XI activity; blood-coagulation factor XIa; coagulation factor XIa activity; plasma thromboplastin antecedent activity
Comment: This term was made obsolete because it represents a gene product.
obsolete coagulation factor XIIa activity (GO:0003806)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the selective cleavage of Arg-Ile bonds in factor VII to form factor VIIa and factor XI to form factor XIa.
Synonyms: activated beta blood-coagulation factor XII; blood coagulation factor XII activity; blood-coagulation factor XIIabeta; blood-coagulation factor XIIf; coagulation factor XIIa activity; hageman factor (activated); hageman factor activity; hageman factor beta-fragment; hageman factor fragment HFf; kallikreinogen activator; prealbumin activator; prekallikrein activator
Comment: This term was made obsolete because it represents a gene product.
obsolete plasma kallikrein activity (GO:0003807)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the selective cleavage of Arg-Xaa and Lys-Xaa bonds, including Lys-Arg and Arg-Ser bonds in (human) kininogen to release bradykinin.
Synonyms: callicrein; depot-padutin; dilminal D; glumorin; kallidinogenase; kallikrein; kallikrein I; kallikrein II; kininogenase; kininogenin activity; onokrein P; padreatin; padutin; panceatic kallikrein; plasma kallikrein activity; serum kallikrein activity; urinary kallikrein; urokallikrein
Comment: This term was made obsolete because it represents a gene product.
obsolete protein C (activated) activity (GO:0003808)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the degradation of blood coagulation factors Va and VIIIa.
Synonyms: activated blood coagulation factor XIV activity; activated protein C; autoprothrombin II-A; autoprothrombin IIA activity; blood-coagulation factor XIVa; GSAPC; protein C (activated) activity; protein Ca
Comment: This term was made obsolete because it represents a gene product.
obsolete thrombin activity (GO:0003809)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the preferential cleavage of Arg-Gly; activates fibrinogen to fibrin and releases fibrinopeptide A and B.
Synonyms: activated blood-coagulation factor II; beta-thrombin; blood-coagulation factor IIa; E thrombin; factor IIa; fibrinogenase activity; gamma-thrombin; thrombase activity; thrombin activity; thrombin-C; thrombofort; topical; tropostasin
Comment: This term was made obsolete because it represents a gene product.
protein-glutamine gamma-glutamyltransferase activity (GO:0003810)
Namespace: molecular_function
Definition: Catalysis of the reaction: L-glutaminyl-[protein] + L-lysyl-[protein] = [protein]-L-lysyl-N(6)-5-L-glutamyl-[protein] + NH4+. This reaction is the formation of the N6-(L-isoglutamyl)-L-lysine isopeptide, resulting in cross-linking polypeptide chains; the gamma-carboxamide groups of peptidyl-glutamine residues act as acyl donors, and the 6-amino-groups of peptidyl-lysine residues act as acceptors, to give intra- and intermolecular N6-(5-glutamyl)lysine cross-links.
Synonyms: factor XIIIa; fibrin stabilizing factor; fibrinoligase activity; glutaminylpeptide gamma-glutamyltransferase activity; polyamine transglutaminase activity; protein-glutamine:amine gamma-glutamyltransferase; R-glutaminyl-peptide:amine gamma-glutamyl transferase activity; TGase activity; tissue transglutaminase; transglutaminase activity
obsolete complement activity (GO:0003811)
Namespace: molecular_function
Definition: OBSOLETE. Any of a set of activities involved in the complement cascade.
Synonyms: complement activity
Comment: This term was made obsolete because it refers to involvement in a biological process.