Descriptions

The DNA-dependent RNA polymerase (RNAP) is the principal enzyme of the transcription process, and is a final target in many regulatory pathways that control gene expression in all living organisms. In bacteria, RNAP is responsible for the synthesis of all RNAs in the cell (messenger RNA, ribosomal RNA, transfer RNA, and so on). <br> The binding of initiation factor σ to a RNAP core enzyme results in the formation of a holoenzyme, the active form of RNAP essential for transcription initiation. The atomic model of the σ70 subunit lacks the disordered N-terminal domain (σ1-73), which includes the conserved σ region 1.1. In the autoinhibited state, the polar surface of the region 2.2 helix is partially occluded by a loop within the nonconserved insert between regions 1.2 and 2.1, which masks the DNA-binding regions of σ before it binds the core. In the complex of σ with core RNAP, the loop is repositioned to expose the core RNAP binding determinants in region 2.2.

Autoinhibitory domains (AIDs)

Target domain

135-204 (σ2 domain)

Relief mechanism

Ligand binding

Assay

Accessory elements

No accessory elements

Autoinhibited structure

Activated structure

4 structures for P0A0J0

Entry ID Method Resolution Chain Position Source
4G6D X-ray 200 A A 297-368 PDB
4G8X X-ray 300 A A/C 297-357 PDB
4G94 X-ray 200 A A 297-357 PDB
AF-P0A0J0-F1 Predicted AlphaFoldDB

1 variants for P0A0J0

Variant ID(s) Position Change Description Diseaes Association Provenance
209 P>S plaC1 mutation; results in a narrower specificity for promoters [UniProt] No

No associated diseases with P0A0J0

11 regional properties for P0A0J0

Type Name Position InterPro Accession
domain RNA polymerase sigma-70 159 - 172 IPR000943-1
domain RNA polymerase sigma-70 183 - 191 IPR000943-2
domain RNA polymerase sigma-70 307 - 319 IPR000943-3
domain RNA polymerase sigma-70 328 - 354 IPR000943-4
domain RNA polymerase sigma factor 70, region 1.1 24 - 80 IPR007127
domain RNA polymerase sigma-70 region 3 214 - 290 IPR007624
domain RNA polymerase sigma-70 region 2 135 - 204 IPR007627
domain RNA polymerase sigma-70 region 4 303 - 356 IPR007630
domain RNA polymerase sigma-70 region 1.2 97 - 129 IPR009042
domain RNA polymerase sigma factor RpoD, C-terminal 131 - 367 IPR012760
domain RNA polymerase sigma-70 like domain 133 - 356 IPR014284

Functions

Description
EC Number
Subcellular Localization
  • Cytoplasm
PANTHER Family
PANTHER Subfamily
PANTHER Protein Class
PANTHER Pathway Category No pathway information available

1 GO annotations of cellular component

Name Definition
cytoplasm The contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

2 GO annotations of molecular function

Name Definition
DNA binding Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
sigma factor activity Sigma factors act as the promoter specificity subunit of eubacterial and plant plastid multisubunit RNA polymerases, whose core subunit composition is often described as alpha(2)-beta-beta-prime. Although sigma does not bind DNA on its own, when combined with the core to form the holoenzyme, the sigma factor binds specifically to promoter elements. The sigma subunit is released once elongation begins.

1 GO annotations of biological process

Name Definition
DNA-templated transcription, initiation The initial step of transcription, consisting of the assembly of the RNA polymerase preinitiation complex (PIC) at a gene promoter, as well as the formation of the first few bonds of the RNA transcript. Transcription initiation includes abortive initiation events, which occur when the first few nucleotides are repeatedly synthesized and then released, and ends when promoter clearance takes place.

No homologous proteins in AiPD

UniProt AC Gene Name Protein Name Species Evidence Code
No homologous proteins
10 20 30 40 50 60
MSDNTVKIKK QTIDPTLTLE DVKKQLIEKG KKEGHLSHEE IAEKLQNFDI DSDQMDDFFD
70 80 90 100 110 120
QLNDNDISLV NEKDSSDTDE KLNPSDLSAP PGVKINDPVR MYLKEIGRVN LLSAQEEIEL
130 140 150 160 170 180
AKRIEQGDEV AKSRLAEANL RLVVSIAKRY VGRGMLFLDL IQEGNMGLIK AVEKFDFNKG
190 200 210 220 230 240
FKFSTYATWW IRQAITRAIA DQARTIRIPV HMVETINKLI RVQRQLLQDL GRDPAPEEIG
250 260 270 280 290 300
EEMDLPAEKV REILKIAQEP VSLETPIGEE DDSHLGDFIE DQEAQSPSDH AAYELLKEQL
310 320 330 340 350 360
EDVLDTLTDR EENVLRLRFG LDDGRTRTLE EVGKVFGVTR ERIRQIEAKA LRKLRHPSRS
KRLKDFMD