Protein Domain : IPR000943

Type:  Domain Name:  RNA polymerase sigma-70
Description:  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 []. 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.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 [, ]. Each sigma2 domain is composed of a bundle of three alpha-helices that is virtually identical in all structures analyzed to date []. The second helix of this bundle is a major point for contact with a coiled-coil domain in the beta' subunit of the core RNA polymerase complex. The third helix of the bundle includes conserved residues along one face that are involved in DNA melting and in recognition of the -10 promoter element. The sigma3 domain, which is less conserved between members of the sigma70 family is also a three-helix domain, the first helix of which contains the residues implicated in contacting DNA upstream of extended -10 promoters. The sigma4, domain has two pairs of alpha helices; the carboxy-terminal pair forms a helix-turn-helix motif that contacts the promoter DNA in the region from -30 to -38. Short Name:  RNA_pol_sigma70
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1 Child Features

DB identifier Type Name
IPR012760 Domain RNA polymerase sigma factor RpoD, C-terminal

6 Contains

DB identifier Type Name
IPR011991 Domain Winged helix-turn-helix DNA-binding domain
IPR013324 Domain RNA polymerase sigma factor, region 3/4
IPR013325 Domain RNA polymerase sigma factor, region 2
IPR007627 Domain RNA polymerase sigma-70 region 2
IPR007630 Domain RNA polymerase sigma-70 region 4
IPR007624 Domain RNA polymerase sigma-70 region 3

3 Cross Referencess

Identifier
PR00046
PS00715
PS00716

11 Found Ins

DB identifier Type Name
IPR016262 Family RNA polymerase sigma factor, SigB/C/D/F, plastid
IPR012759 Family RNA polymerase sigma factor RpoH, proteobacteria
IPR016263 Family RNA polymerase sporulation-specific sigma factor
IPR017848 Family RNA polymerase sigma factor, RpoD-like, cyanobacteria
IPR014209 Family RNA polymerase sigma-K type
IPR012761 Family RNA polymerase sigma factor RpoS
IPR016371 Family RNA polymerase sigma-H factor
IPR014218 Family RNA polymerase sigma-H type
IPR014200 Family RNA polymerase sigma-E type
IPR012845 Family RNA polymerase sigma factor, FliA/WhiG
IPR014322 Family RNA polymerase sigma-B/F/G type

5 GO Annotations

GO Term Gene Name
GO:0003677 IPR000943
GO:0003700 IPR000943
GO:0016987 IPR000943
GO:0006352 IPR000943
GO:0006355 IPR000943

5 Ontology Annotations

GO Term Gene Name
GO:0003677 IPR000943
GO:0003700 IPR000943
GO:0016987 IPR000943
GO:0006352 IPR000943
GO:0006355 IPR000943

1 Parent Features

DB identifier Type Name
IPR014284 Domain RNA polymerase sigma-70 like domain

3256 Proteins

DB identifier UniProt Accession Secondary Identifier Organism Name Length
147096 D8RGX1 PAC:15401952 Selaginella moellendorffii 458  
53596 D8S3G8 PAC:15415781 Selaginella moellendorffii 326  
117159 D8SHL6 PAC:15403291 Selaginella moellendorffii 292  
266972 D8R5F3 PAC:15412233 Selaginella moellendorffii 249  
evm.model.supercontig_125.39 PAC:16407269 Carica papaya 443  
evm.model.supercontig_3.54 PAC:16416838 Carica papaya 547  
evm.model.supercontig_3807.1 PAC:16418945 Carica papaya 333  
evm.model.supercontig_43.154 PAC:16419967 Carica papaya 301  
evm.model.supercontig_56.16 PAC:16422721 Carica papaya 564  
evm.model.supercontig_73.29 PAC:16425606 Carica papaya 357  
29794.m003368 B9RRX0 PAC:16808728 Ricinus communis 560  
29864.m001444 B9RVK0 PAC:16811756 Ricinus communis 389  
30078.m002307 B9S0J0 PAC:16817418 Ricinus communis 548  
30148.m001412 B9SDA3 PAC:16820557 Ricinus communis 569  
30148.m001468 B9SDF8 PAC:16820612 Ricinus communis 508  
30169.m006532 B9RIL8 PAC:16821332 Ricinus communis 501  
33296.m000030 B9TG49 PAC:16825763 Ricinus communis 124  
Cucsa.362600.1 A0A0A0K917 PAC:16980950 Cucumis sativus 580  
Cucsa.012950.1 PAC:16951584 Cucumis sativus 585  
Cucsa.012950.2 A0A0A0LCQ9 PAC:16951585 Cucumis sativus 547  
Cucsa.124610.1 A0A0A0KEQ6 PAC:16961743 Cucumis sativus 562  
Cucsa.073340.2 PAC:16955602 Cucumis sativus 473  
Cucsa.073340.1 A0A0A0LQR2 PAC:16955601 Cucumis sativus 508  
Cucsa.160980.1 PAC:16965441 Cucumis sativus 473  
Cucsa.248920.1 A0A0A0L9T0 PAC:16971515 Cucumis sativus 436  
orange1.1g010308m A0A067EY28 PAC:18126912 Citrus sinensis 513  
orange1.1g010092m A0A067ELT2 PAC:18126911 Citrus sinensis 518  
orange1.1g010284m A0A067EY28 PAC:18126913 Citrus sinensis 513  
orange1.1g010327m A0A067EY28 PAC:18126914 Citrus sinensis 513  
orange1.1g010338m A0A067EY28 PAC:18126915 Citrus sinensis 513  

4 Publications

First Author Title Year Journal Volume Pages PubMed ID
            3052291
            1597408
            3092189
            12540296