LiteFold/GO huggingface dataset:
obsolete RNA polymerase III transcription regulator recruiting activity (GO:0001004)
Namespace: molecular_function
Definition: OBSOLETE. Initiating the assembly of the RNA polymerase III pre-initiation complex by binding to a control sequence in the intragenic region. This allows to recruit TFIIIB to the DNA at a site centered approximately 26 base pairs upstream of the start site of transcription. For tRNA genes, TFIIIC first associates with DNA, and then recruits TFIIIB. For 5S rRNA genes, TFIIIA binds to DNA first, followed by TFIIIC, which then recruits TFIIIB.
Synonyms: RNA polymerase III assembly factor activity; RNA polymerase III assembly factor activity, TFIIIB recruiting; RNA polymerase III hybrid type promoter TFIIIB recruiting transcription factor activity; RNA polymerase III promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity; RNA polymerase III transcription factor recruiting activity; RNA polymerase III type 1 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity; RNA polymerase III type 2 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity; RNA polymerase III type 3 promoter TFIIIB recruiting transcription factor activity; SNAPc-type activity; TFIIIA activity; TFIIIC-type activity; transcription factor activity, RNA polymerase III promoter sequence-specific binding, TFIIIB recruiting; transcription factor activity, RNA polymerase III type 1 promoter sequence-specific binding, TFIIIB recruiting; transcription factor activity, RNA polymerase III type 1 promoter TFIIIB; transcription factor activity, RNA polymerase III type 2 promoter sequence-specific binding, TFIIIB recruiting; transcription factor activity, RNA polymerase III type 3 promoter TFIIIB recruiting; type 2 RNA polymerase III promoter recognition; type 3 RNA polymerase III promoter recognition
Comment: The reason for obsoletion is that this function is redundant with other terms, most often 'transcription co-regulator activity; GO:0003712'.
RNA polymerase III type 3 promoter sequence-specific DNA binding (GO:0001006)
Namespace: molecular_function
Definition: Binding to a sequence of DNA that is a part of a type 3 promoter that controls transcription by RNA polymerase III (Pol III). A type 3 Pol III promoter is composed of elements upstream of the transcription start site, including a TATA box. The human U6 snRNA gene has a type 3 promoter. Type 3 Pol III promoters have not been observed in S. cerevisiae.
Synonyms: RNA polymerase III type 3 promoter DNA binding
obsolete RNA polymerase II sequence-specific DNA-binding transcription factor recruiting activity (GO:0001010)
Namespace: molecular_function
Definition: OBSOLETE. The function of binding to a specific DNA sequence and recruiting another transcription factor to the DNA in order to modulate transcription. The recruited factor may bind DNA directly, or may be colocalized via protein-protein interactions.
Synonyms: sequence-specific DNA binding transcription factor recruiting transcription factor activity; transcription factor activity, sequence-specific DNA binding transcription factor recruiting; transcription factor activity, sequence-specific DNA-binding transcription factor recruiting
Comment: This term was obsoleted because it was not clearly defined.
obsolete transcription factor activity, sequence-specific DNA binding, RNA polymerase recruiting (GO:0001011)
Namespace: molecular_function
Definition: OBSOLETE. Binding to a specific DNA sequence and recruiting RNA polymerase to the DNA in order to form the preinitiation complex (PIC).
Synonyms: sequence-specific DNA binding RNA polymerase recruiting transcription factor activity
Comment: This term was obsoleted because it was not clearly defined and usage has been inconsistent.
snoRNA transcription by RNA polymerase III (GO:0001014)
Namespace: biological_process
Definition: The synthesis of small nucleolar RNA (snoRNA) from a DNA template by RNA polymerase III, originating at a type 2 RNA polymerase III promoter.
Synonyms: snoRNA transcription from a type 2 RNA polymerase III promoter
snoRNA transcription by RNA polymerase II (GO:0001015)
Namespace: biological_process
Definition: The synthesis of small nucleolar RNA (snoRNA) from a DNA template by RNA polymerase II, originating at an RNA polymerase II promoter.
Synonyms: snoRNA transcription from an RNA polymerase II promoter
RNA polymerase III transcription regulatory region sequence-specific DNA binding (GO:0001016)
Namespace: molecular_function
Definition: Binding to a DNA region that controls the transcription of a gene by RNA polymerase III. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors.
Synonyms: RNA polymerase III regulatory region DNA binding
mitochondrial promoter sequence-specific DNA binding (GO:0001018)
Namespace: molecular_function
Definition: Binding to a DNA region that controls the transcription of the mitochondrial DNA.
Synonyms: HSP coding strand binding; HSP non-coding strand binding; HSPas binding; HSPs binding; LSP coding strand binding; LSP non-coding strand binding; LSPas binding; LSPs binding; mitochondrial heavy strand promoter anti-sense binding; mitochondrial heavy strand promoter sense binding; mitochondrial light strand promoter anti-sense binding; mitochondrial light strand promoter sense binding; mitochondrial proximal promoter sequence-specific DNA binding; mitochondrial RNA polymerase core promoter proximal region sequence-specific DNA binding; mitochondrial RNA polymerase core promoter sequence-specific DNA binding; mitochondrial RNA polymerase regulatory region DNA binding; mitochondrial RNA polymerase regulatory region sequence-specific DNA binding
plastid promoter transcription regulatory region sequence-specific DNA binding (GO:0001019)
Namespace: molecular_function
Definition: Binding to a DNA region that controls transcription by a plastid RNA polymerase. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors.
Comment: plastid promoter regulatory region sequence-specific DNA binding
RNA polymerase III general transcription initiation factor binding (GO:0001025)
Namespace: molecular_function
Definition: Binding to an RNA polymerase III transcription factor, a protein required to initiate or regulate transcription by RNA polymerase III.
Synonyms: RNA polymerase III transcription factor binding
obsolete TFIIIB-type transcription factor activity (GO:0001026)
Namespace: molecular_function
Definition: OBSOLETE. Binding to an RNA polymerase III (Pol III) complex, typically composed of seventeen subunits, and with another protein, macromolecule, or complex, permitting those molecules to function in a coordinated way, Once recruited to an RNA polymerase III promoter by one or more other transcription factors, binds to DNA, recruits RNA polymerase III and facilitates the transition from the closed to the open complex.
Synonyms: RNA polymerase III recruiting transcription factor activity
Comment: This term was obsoleted because it represents a gene product.
obsolete RNA polymerase III type 1 promoter TFIIIB-type transcription factor activity (GO:0001027)
Namespace: molecular_function
Definition: OBSOLETE. Binding to an RNA polymerase III (Pol III) complex, typically composed of seventeen subunits, and with another protein, macromolecule, or complex, permitting those molecules to function in a coordinated way. Once recruited to an RNA polymerase III type 1 promoter by TFIIIA-type and TFIIIC-type factors, binds to DNA, recruits RNA polymerase III and facilitates the transition from the closed to the open complex.
Synonyms: RNA polymerase III type 1 promoter polymerase recruiting transcription factor activity
Comment: The reason for obsoletion is that there is a single TFIIIB activity; this is not dependent on the promoter.
obsolete RNA polymerase III type 2 promoter TFIIIB-type transcription factor activity (GO:0001028)
Namespace: molecular_function
Definition: OBSOLETE. Binding to an RNA polymerase III (Pol III) complex, typically composed of seventeen subunits, and with another protein, macromolecule, or complex, permitting those molecules to function in a coordinated way. Once recruited to an RNA polymerase III type 2 promoter by a TFIIIC-type factor, binds to DNA, recruits RNA polymerase III and facilitates the transition from the closed to the open complex.
Synonyms: RNA polymerase III type 2 promoter polymerase recruiting transcription factor activity
Comment: The reason for obsoletion is that there is a single TFIIIB activity; this is not dependent on the promoter.
obsolete RNA polymerase III type 3 promoter TFIIIB-type transcription factor activity (GO:0001029)
Namespace: molecular_function
Definition: OBSOLETE. Binding to an RNA polymerase III (Pol III) complex, typically composed of seventeen subunits, and with another protein, macromolecule, or complex, permitting those molecules to function in a coordinated way. Once recruited to an RNA polymerase III type 3 promoter by SNAP-type and TFIIIC-type factors, binds to DNA, recruits RNA polymerase III and facilitates the transition from the closed to the open complex.
Synonyms: RNA polymerase III type 3 promoter polymerase recruiting transcription factor activity
RNA polymerase III hybrid type promoter sequence-specific DNA binding (GO:0001039)
Namespace: molecular_function
Definition: Binding to a sequence of DNA that is a part of a hybrid type promoter that controls transcription by RNA polymerase III (Pol III). A hybrid Pol III promoter contains both regulatory elements both upstream and downstream of the transcription initiation site. An example gene with such a promoter is the S. cerevisiae U6 gene.
Synonyms: RNA polymerase III hybrid type promoter DNA binding
obsolete RNA polymerase III hybrid type promoter TFIIIB-type transcription factor activity (GO:0001040)
Namespace: molecular_function
Definition: OBSOLETE. Binding to an RNA polymerase III (Pol III) complex, typically composed of seventeen subunits, and with another protein, macromolecule, or complex, permitting those molecules to function in a coordinated way. Once recruited to an RNA polymerase III hybrid type promoter, binds to DNA, recruits RNA polymerase III and facilitates the transition from the closed to the open complex.
Comment: The reason for obsoletion is that there is a single TFIIIB activity; this is not dependent on the promoter.
RNA polymerase I core binding (GO:0001042)
Namespace: molecular_function
Definition: Binding to a RNA polymerase I core enzyme, a multisubunit eukaryotic nuclear RNA polymerase typically composed of seventeen subunits.
core promoter sequence-specific DNA binding (GO:0001046)
Namespace: molecular_function
Definition: Binding to a sequence of DNA that is part of a core promoter region. The core promoter is composed of the transcription start site and binding sites for the RNA polymerase and the basal transcription machinery. The transcribed region might be described as a gene, cistron, or operon.
Synonyms: bacterial-type RNA polymerase core promoter sequence-specific DNA binding; core promoter binding; eubacterial-type RNA polymerase core promoter sequence-specific DNA binding
RNA polymerase IV core binding (GO:0001048)
Namespace: molecular_function
Definition: Binding to RNA polymerase IV core enzyme, a multisubunit eukaryotic nuclear RNA polymerase found in plants and involved in siRNA production.
RNA polymerase V core binding (GO:0001049)
Namespace: molecular_function
Definition: Binding to RNA polymerase V core enzyme, a multisubunit eukaryotic nuclear RNA polymerase found in plants and involved in production of noncoding transcripts at target loci for silencing.
single-subunit type RNA polymerase binding (GO:0001050)
Namespace: molecular_function
Definition: Binding to a single subunit RNA polymerase enzyme, which is composed of a single catalytic subunit similar to the RNA polymerase enzymes from phages T3, T7, and SP6.
Synonyms: SP6-type RNA polymerase binding; T3-type RNA polymerase binding; T3/T7 type RNA polymerase binding; T7-type RNA polymerase binding
plastid single-subunit type RNA polymerase binding (GO:0001051)
Namespace: molecular_function
Definition: Binding to a single subunit plastid RNA polymerase enzyme, which is composed of a single catalytic subunit similar to the RNA polymerase enzymes from phages T3, T7, and SP6.
plastid PEP RNA polymerase core enzyme binding (GO:0001052)
Namespace: molecular_function
Definition: Binding to a bacterial-type plastid PEP RNA polymerase core enzyme, typically consisting of two alpha, one beta, one beta prime, and one double prime subunit.
obsolete RNA polymerase I activity (GO:0001054)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains an RNA polymerase I specific promoter to direct initiation and catalyzes DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Synonyms: DNA-directed RNA polymerase activity involved in transcription from RNA polymerase I promoter
Comment: The reason for obsoletion is that this term is equivalent to DNA-directed 5'-3' RNA polymerase activity.
obsolete RNA polymerase II activity (GO:0001055)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains an RNA polymerase II specific promoter to direct initiation and catalyses DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Synonyms: DNA-directed RNA polymerase activity involved in transcription from RNA polymerase II promoter
Comment: The reason for obsoletion is that this term is equivalent to DNA-directed 5'-3' RNA polymerase activity.
obsolete RNA polymerase III activity (GO:0001056)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains an RNA polymerase III specific promoter to direct initiation and catalyses DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Synonyms: DNA-directed RNA polymerase activity involved in transcription from RNA polymerase III promoter
Comment: The reason for obsoletion is that this term is equivalent to DNA-directed 5'-3' RNA polymerase activity.
obsolete RNA polymerase IV activity (GO:0001057)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains an RNA polymerase IV specific promoter to direct initiation and catalyses DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Synonyms: DNA-directed RNA polymerase activity involved in transcription from RNA polymerase IV promoter
Comment: The reason for obsoletion is that this term is equivalent to DNA-directed 5'-3' RNA polymerase activity.
obsolete RNA polymerase V activity (GO:0001058)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains an RNA polymerase V specific promoter to direct initiation and catalyses DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Synonyms: DNA-directed RNA polymerase activity involved in transcription from RNA polymerase V promoter
Comment: The reason for obsoletion is that this term is equivalent to DNA-directed 5'-3' RNA polymerase activity.
transcription by RNA polymerase IV (GO:0001059)
Namespace: biological_process
Definition: The synthesis of RNA from a DNA template by RNA polymerase IV, originating at a Pol IV-specific promoter.
Synonyms: transcription from RNA pol IV promoter; transcription from RNA polymerase IV promoter
transcription by RNA polymerase V (GO:0001060)
Namespace: biological_process
Definition: The synthesis of RNA from a DNA template by RNA polymerase V, originating at a Pol V-specific promoter.
Synonyms: transcription from RNA pol V promoter; transcription from RNA polymerase V promoter
obsolete bacterial-type RNA polymerase activity (GO:0001061)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains a bacterial-type specific promoter to direct initiation and catalyses DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Comment: This term was obsoleted because the activity is the same as its parent.
obsolete plastid PEP-A RNA polymerase activity (GO:0001062)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains a plastid PEP-A RNA polymerase II specific promoter to direct initiation and catalyses DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Comment: This term was obsoleted because the activity is the same as its parent.
obsolete plastid PEP-B RNA polymerase activity (GO:0001063)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains a plastid PEP-B RNA polymerase II specific promoter to direct initiation and catalyses DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Comment: This term was obsoleted because the activity is the same as its parent.
obsolete single subunit type RNA polymerase activity (GO:0001064)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains a single-subunit-type RNA polymerase-specific promoter to direct initiation and catalyses DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Synonyms: T3/T7 type RNA polymerase activity
Comment: The reason for obsoletion is that this term is equivalent to DNA-directed 5'-3' RNA polymerase activity.
obsolete mitochondrial single subunit type RNA polymerase activity (GO:0001065)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains a single-subunit-type mitochondrial RNA polymerase-specific promoter to direct initiation and catalyses DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Comment: The reason for obsoletion is that this term is equivalent to DNA-directed 5'-3' RNA polymerase activity.
obsolete plastid single subunit type RNA polymerase activity (GO:0001066)
Namespace: molecular_function
Definition: OBSOLETE. Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). Utilizes a DNA template that contains a single subunit type plastid RNA polymerase specific promoter to direct initiation and catalyses DNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time. Can initiate a chain 'de novo'.
Comment: The reason for obsoletion is that this term is equivalent to DNA-directed 5'-3' RNA polymerase activity.
transcription regulatory region nucleic acid binding (GO:0001067)
Namespace: molecular_function
Definition: Binding to a nucleic acid region that regulates a nucleic acid-based process. Such processes include transcription, DNA replication, and DNA repair.
Synonyms: regulatory region nucleic acid binding
transcription regulatory region RNA binding (GO:0001068)
Namespace: molecular_function
Definition: Binding to a RNA region within the transcript that regulates the transcription of a gene, cistron, or operon.
regulatory region RNA binding (GO:0001069)
Namespace: molecular_function
Definition: Binding to a RNA region that regulates a nucleic acid-based process. Such processes include transcription, DNA replication, and DNA repair.
RNA-binding transcription regulator activity (GO:0001070)
Namespace: molecular_function
Definition: A transcription regulator activity that modulates the transcription of specific gene sets via selective and non-covalent binding to a specific RNA sequence. This function is known to occur in phages and viruses, for example the lambda N and the HIV tat proteins are necessary to allow RNA polymerase to read through terminator sequences.
Synonyms: RNA binding transcription factor activity; RNA binding transcription regulator activity
transcription antitermination factor activity, RNA binding (GO:0001072)
Namespace: molecular_function
Definition: Binds to RNA, typically within the nascent RNA transcript, to promote readthrough of a transcription termination site and thus extending the length of the RNA transcript produced. Examples of antitermination factors which bind the nascent RNA include the lambda N protein and the HIV-1 tat protein.
Synonyms: RNA binding transcription antitermination factor activity
transcription antitermination factor activity, DNA binding (GO:0001073)
Namespace: molecular_function
Definition: Binds to DNA, typically within region of the promoter and transcribed region, to promote readthrough of a transcription termination site and thus extending the length of the RNA transcript produced. Examples of antitermination factors which bind DNA include the lambda Q protein.
Synonyms: DNA binding transcription antitermination factor activity
obsolete transcription factor activity, RNA polymerase II proximal promoter sequence-specific DNA binding involved in preinitiation complex assembly (GO:0001074)
Namespace: molecular_function
Definition: OBSOLETE. Binding to a sequence of DNA that is in cis with and relatively close to a core promoter for RNA polymerase II (RNAP II) in order to promote assembly of the transcriptional preinitiation complex (PIC), the formation of which is a prerequisite for transcription from an RNA polymerase II promoter.
Synonyms: RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly; transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific binding involved in preinitiation complex assembly
Comment: This term has been obsoleted because it represents a GO-CAM model.
obsolete transcription factor activity, RNA polymerase II transcription factor binding (GO:0001076)
Namespace: molecular_function
Definition: OBSOLETE. Binding to an RNA polymerase II transcription factor, which may be a single protein or a complex, in order to modulate transcription. A protein binding transcription factor may or may not also interact with the template nucleic acid (either DNA or RNA) as well.
Synonyms: RNA polymerase II transcription factor binding transcription factor activity
Comment: The reason for obsoletion is that this concept is partly covered by other concepts in the ontology and usage has been inconsistent.
nitrogen catabolite activation of transcription from RNA polymerase II promoter (GO:0001080)
Namespace: biological_process
Definition: A transcription regulation process in which the presence of one nitrogen source leads to an increase in the frequency, rate, or extent of transcription, from an RNA polymerase II promoter, of specific genes involved in the metabolism of other nitrogen sources.
Synonyms: positive regulation of transcription from RNA polymerase II promoter by nitrogen catabolites