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Protein

RNA polymerase sigma factor RpoD

Gene

rpoD

Organism
Helicobacter pylori (Campylobacter pylori)
Status
Unreviewed-Annotation score: Annotation score: 2 out of 5-Protein inferred from homologyi

Functioni

Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is the primary sigma factor during exponential growth.SAAS annotation

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi645 – 664H-T-H motifUniRule annotationAdd BLAST20

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Sigma factorUniRule annotationSAAS annotation

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-bindingUniRule annotationSAAS annotation

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase sigma factor RpoDUniRule annotation
Alternative name(s):
Sigma-70UniRule annotation
Gene namesi
Name:rpoDUniRule annotationImported
OrganismiHelicobacter pylori (Campylobacter pylori)Imported
Taxonomic identifieri210 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotation

Interactioni

Subunit structurei

Interacts transiently with the RNA polymerase catalytic core.UniRule annotation

Protein-protein interaction databases

STRINGi85963.jhp0081.

Structurei

3D structure databases

ProteinModelPortaliO32637.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini474 – 487RNA_pol_sigma70InterPro annotationAdd BLAST14
Domaini644 – 670RNA_pol_sigma70InterPro annotationAdd BLAST27

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni450 – 520Sigma-70 factor domain-2UniRule annotationAdd BLAST71
Regioni529 – 605Sigma-70 factor domain-3UniRule annotationAdd BLAST77
Regioni618 – 672Sigma-70 factor domain-4UniRule annotationAdd BLAST55

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili22 – 64Sequence analysisAdd BLAST43

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi474 – 477Interaction with polymerase core subunit RpoCUniRule annotation4

Keywords - Domaini

Coiled coilSequence analysis

Phylogenomic databases

eggNOGiENOG4105DG1. Bacteria.
COG0568. LUCA.

Family and domain databases

Gene3Di1.10.10.10. 2 hits.
HAMAPiMF_00963. Sigma70_RpoD_SigA. 1 hit.
InterProiIPR014284. RNA_pol_sigma-70_dom.
IPR000943. RNA_pol_sigma70.
IPR009042. RNA_pol_sigma70_r1_2.
IPR007627. RNA_pol_sigma70_r2.
IPR007624. RNA_pol_sigma70_r3.
IPR007630. RNA_pol_sigma70_r4.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR012760. RNA_pol_sigma_RpoD_C.
IPR028630. Sigma70_RpoD.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00140. Sigma70_r1_2. 1 hit.
PF04542. Sigma70_r2. 1 hit.
PF04539. Sigma70_r3. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view]
PRINTSiPR00046. SIGMA70FCT.
SUPFAMiSSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02393. RpoD_Cterm. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEiPS00715. SIGMA70_1. 1 hit.
PS00716. SIGMA70_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O32637-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGSYFMESPM KKKANEEKAP KRAKQEAKTE VAQENKAKEN NKTKESKIKE
60 70 80 90 100
NKTKESKIKE AKAKEPVPVK KLSFNEALEE LFANSLSDCV SYESIIQISA
110 120 130 140 150
KVPTLAQVKK IKELCQKYQK KLVSSSEYAK KLNAIDKIKK TEEKQKVLDE
160 170 180 190 200
ELEDGYDFLK EKDFLEWSRS DSPVRMYLRE MGDIKLLSKD EEIELSKQIR
210 220 230 240 250
LGEDIILDAI CSVPYLIDFI YAYKDALINR ERRVKELFRS FDDDDENSVS
260 270 280 290 300
DSKKDDDNEE DEENEERKKV VSEKDRKRVE KVQESFKALD KAKKEWLKAL
310 320 330 340 350
EAPVDEKEDE LVRLLTLAYK RQTLKDRLYD LEPTSKLINE LVKTMETTLK
360 370 380 390 400
SGDGFEKELK RLEYKLPLFN DTLIANHKKI LANITNMTKE DIIAQVPEAT
410 420 430 440 450
MVSVYMDLKK LFLTKEASEE GFDLAPNKLK EILEQIKRGK LISDRAKNKM
460 470 480 490 500
AKSNLRLVVS IAKRFTSRGL PFLDLIQEGN IGLMKAVDKF EHEKGFKFST
510 520 530 540 550
YATWWIKQAI SRAIADQART IRIPIHMIDT INRINKVMRK HIQETGKEPD
560 570 580 590 600
LEVVAEEVGL SLDKVKNVIK VTKEPISLET PVGNDDDGKF GDFVEDKNIV
610 620 630 640 650
SSIDHIMRED LKAQIESVLD QLNEREKAVI RMRFGLLDDE SDRTLEEIGK
660 670 680
ELNVTRERVR QIESSAIKKL RSPQYGRILR NYLRI
Length:685
Mass (Da):79,349
Last modified:January 1, 1998 - v1
Checksum:i3634E4DD410AE18C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF009177 Genomic DNA. Translation: AAC64856.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF009177 Genomic DNA. Translation: AAC64856.1.

3D structure databases

ProteinModelPortaliO32637.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi85963.jhp0081.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

eggNOGiENOG4105DG1. Bacteria.
COG0568. LUCA.

Family and domain databases

Gene3Di1.10.10.10. 2 hits.
HAMAPiMF_00963. Sigma70_RpoD_SigA. 1 hit.
InterProiIPR014284. RNA_pol_sigma-70_dom.
IPR000943. RNA_pol_sigma70.
IPR009042. RNA_pol_sigma70_r1_2.
IPR007627. RNA_pol_sigma70_r2.
IPR007624. RNA_pol_sigma70_r3.
IPR007630. RNA_pol_sigma70_r4.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR012760. RNA_pol_sigma_RpoD_C.
IPR028630. Sigma70_RpoD.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00140. Sigma70_r1_2. 1 hit.
PF04542. Sigma70_r2. 1 hit.
PF04539. Sigma70_r3. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view]
PRINTSiPR00046. SIGMA70FCT.
SUPFAMiSSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsiTIGR02393. RpoD_Cterm. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEiPS00715. SIGMA70_1. 1 hit.
PS00716. SIGMA70_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiO32637_HELPX
AccessioniPrimary (citable) accession number: O32637
Entry historyi
Integrated into UniProtKB/TrEMBL: January 1, 1998
Last sequence update: January 1, 1998
Last modified: July 6, 2016
This is version 85 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.