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{
"metadata": {
"accession": "IPR007631",
"entry_id": null,
"type": "domain",
"go_terms": [
{
"identifier": "GO:0003677",
"name": "DNA binding",
"category": {
"code": "F",
"name": "molecular_function"
}
},
{
"identifier": "GO:0003700",
"name": "DNA-binding transcription factor activity",
"category": {
"code": "F",
"name": "molecular_function"
}
},
{
"identifier": "GO:0016987",
"name": "sigma factor activity",
"category": {
"code": "F",
"name": "molecular_function"
}
},
{
"identifier": "GO:0006352",
"name": "DNA-templated transcription initiation",
"category": {
"code": "P",
"name": "biological_process"
}
},
{
"identifier": "GO:0006355",
"name": "regulation of DNA-templated transcription",
"category": {
"code": "P",
"name": "biological_process"
}
}
],
"source_database": "interpro",
"member_databases": {
"pfam": {
"PF04546": "Sigma-70, non-essential region"
}
},
"integrated": null,
"hierarchy": {
"accession": "IPR007631",
"name": "RNA polymerase sigma factor 70, non-essential domain",
"type": "Domain",
"children": []
},
"name": {
"name": "RNA polymerase sigma factor 70, non-essential domain",
"short": "RNA_pol_sigma_70_non-ess"
},
"description": [
{
"text": "<p>The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme [[cite:PUB00000061]]. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes.</p>\n\n<p>With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [[cite:PUB00004340], [cite:PUB00002181]].</p>\n\n<p>The plastids of higher plants originating from an ancestral cyanobacterial endosymbiont also contain sigma factors that are encoded by a small family of nuclear genes. All plastid sigma factors belong to the superfamily of sigmaA/sigma70 and have sequences homologous to the conserved regions 1.2, 2, 3, and 4 of bacterial sigma factors [[cite:PUB00088319]].</p>",
"llm": false,
"checked": false,
"updated": false
},
{
"text": "<p>This domain is found in the primary vegetative sigma factor. Its function is unclear, and it can be removed without apparent loss of function [[cite:PUB00000942], [cite:PUB00010042]].</p>",
"llm": false,
"checked": false,
"updated": false
}
],
"wikipedia": null,
"literature": {
"PUB00010042": {
"PMID": 11931761,
"ISBN": null,
"volume": "9",
"issue": "3",
"year": 2002,
"title": "Structure of the bacterial RNA polymerase promoter specificity sigma subunit.",
"URL": null,
"raw_pages": "527-39",
"medline_journal": "Mol Cell",
"ISO_journal": "Mol. Cell",
"authors": [
"Campbell EA",
"Muzzin O",
"Chlenov M",
"Sun JL",
"Olson CA",
"Weinman O",
"Trester-Zedlitz ML",
"Darst SA."
],
"DOI_URL": "http://dx.doi.org/10.1016/S1097-2765(02)00470-7"
},
"PUB00002181": {
"PMID": 1597408,
"ISBN": null,
"volume": "174",
"issue": "12",
"year": 1992,
"title": "The sigma 70 family: sequence conservation and evolutionary relationships.",
"URL": null,
"raw_pages": "3843-9",
"medline_journal": "J Bacteriol",
"ISO_journal": "J. Bacteriol.",
"authors": [
"Lonetto M",
"Gribskov M",
"Gross CA."
],
"DOI_URL": "http://jb.asm.org/cgi/content/abstract/174/12/3843"
},
"PUB00000061": {
"PMID": 3052291,
"ISBN": null,
"volume": "57",
"issue": null,
"year": 1988,
"title": "Structure and function of bacterial sigma factors.",
"URL": null,
"raw_pages": "839-72",
"medline_journal": "Annu Rev Biochem",
"ISO_journal": "Annu. Rev. Biochem.",
"authors": [
"Helmann JD",
"Chamberlin MJ."
],
"DOI_URL": "http://dx.doi.org/10.1146/annurev.bi.57.070188.004203"
},
"PUB00004340": {
"PMID": 3092189,
"ISBN": null,
"volume": "14",
"issue": "16",
"year": 1986,
"title": "Sigma factors from E. coli, B. subtilis, phage SP01, and phage T4 are homologous proteins.",
"URL": null,
"raw_pages": "6745-63",
"medline_journal": "Nucleic Acids Res",
"ISO_journal": "Nucleic Acids Res.",
"authors": [
"Gribskov M",
"Burgess RR."
],
"DOI_URL": "http://dx.doi.org/10.1093/nar/14.16.6745"
},
"PUB00000942": {
"PMID": 8858155,
"ISBN": null,
"volume": "87",
"issue": "1",
"year": 1996,
"title": "Crystal structure of a sigma 70 subunit fragment from E. coli RNA polymerase.",
"URL": null,
"raw_pages": "127-36",
"medline_journal": "Cell",
"ISO_journal": "Cell",
"authors": [
"Malhotra A",
"Severinova E",
"Darst SA."
],
"DOI_URL": "http://dx.doi.org/10.1016/S0092-8674(00)81329-X"
},
"PUB00088319": {
"PMID": 25596450,
"ISBN": null,
"volume": "1847",
"issue": "9",
"year": 2015,
"title": "Plastid sigma factors: Their individual functions and regulation in transcription.",
"URL": null,
"raw_pages": "770-8",
"medline_journal": "Biochim Biophys Acta",
"ISO_journal": "Biochim. Biophys. Acta",
"authors": [
"Chi W",
"He B",
"Mao J",
"Jiang J",
"Zhang L."
],
"DOI_URL": "https://doi.org/10.1016/j.bbabio.2015.01.001"
}
},
"set_info": null,
"overlaps_with": [
{
"accession": "IPR013325",
"name": "RNA polymerase sigma factor, region 2",
"type": "homologous_superfamily"
}
],
"counters": {
"subfamilies": 0,
"domain_architectures": 26,
"interactions": 0,
"matches": 17844,
"pathways": 0,
"proteins": 17832,
"proteomes": 6640,
"sets": 0,
"structural_models": {
"alphafold": 14995,
"bfvd": 0
},
"structures": 117,
"taxa": 13968
},
"entry_annotations": {
"alignment:seed": 134,
"alignment:full": 3529
},
"cross_references": {},
"is_llm": false,
"is_reviewed_llm": false,
"is_updated_llm": false,
"representative_structure": null
}
}
