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Protein

RNA polymerase sigma factor RpoD

Gene

rpoD

Organism
Campylobacter jejuni
Status
Unreviewed-Annotation score: Annotation score: 3 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.SAAS annotation
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.UniRule annotationSAAS annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi580 – 59920H-T-H motifUniRule annotationAdd
BLAST

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
OrganismiCampylobacter jejuniImported
Taxonomic identifieri197 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesCampylobacteraceaeCampylobacter

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

STRINGi683083.C414_000230052.

Structurei

3D structure databases

ProteinModelPortaliO52921.
SMRiO52921. Positions 342-452.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini409 – 42214RNA_pol_sigma70InterPro annotationAdd
BLAST
Domaini579 – 60527RNA_pol_sigma70InterPro annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni385 – 45571Sigma-70 factor domain-2UniRule annotationAdd
BLAST
Regioni464 – 54077Sigma-70 factor domain-3UniRule annotationAdd
BLAST
Regioni553 – 60755Sigma-70 factor domain-4UniRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi409 – 4124Interaction with polymerase core subunit RpoCUniRule annotation

Sequence similaritiesi

Belongs to the sigma-70 factor family.SAAS annotation
Belongs to the sigma-70 factor family. RpoD/SigA subfamily.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105DG1. Bacteria.
COG0568. LUCA.

Family and domain databases

Gene3Di1.10.10.10. 2 hits.
HAMAPiMF_00963. Sigma70_RpoD_SigA.
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.

O52921-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNAKTQEAEL EELFQENAKD YITYEKLVKY LTKQPSASTA KKVQALMKKH
60 70 80 90 100
KVQLFSAAEI GQMKNIEDAK RLQEEKQKLQ DTSLENEFDL ANENDLLEWS
110 120 130 140 150
RSDSPVRMYL REMGQIALLN KDEEIEISKK IELGEDIIID AFCSVPYLID
160 170 180 190 200
FILDYKEPLI NRERRVKELF KSFDDEEKSD DKLDELDIDE DEENETELES
210 220 230 240 250
DEENTKKNSK KEDERTLKVI EKFKALEKAK KDWLKTSKDK ESGDELLDKL
260 270 280 290 300
SIAFKKNILK EKLMDLGPTS KLISEIVKSM ETALKSDEEF DKELKRLEYR
310 320 330 340 350
LPMFSDELKK RHADILKDIT KLSKEEITER ALETTMVSTY MEIKKLFQTK
360 370 380 390 400
EASEKSFDLE KSRLKEILEQ IKRGKKISDE AKGRMAKSNL RLVVSIAKRY
410 420 430 440 450
TNRGLPFLDL IQEGNIGLMK AVDKFEYKRG YKFSTYATWW IRQAISRAIA
460 470 480 490 500
DQARTIRIPI HMIETINQIN KIIREHLQKD GKEPDVSVIA KEVGLSVDKV
510 520 530 540 550
KQVIKITKEP ISLEAPIGNE DDGKFGDFVE DRNSLSPMDH ILKDDLKEQI
560 570 580 590 600
DEVLDQLNDR EKAVIRMRFG LMDDESDRTL EEIGKELNVT RERVRQIESS
610 620
AIKKLKHPKV GRKLKNYIEG WK
Length:622
Mass (Da):72,562
Last modified:June 1, 1998 - v1
Checksum:i365E7AE8D85C7AE5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ002379 Genomic DNA. Translation: CAA05353.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ002379 Genomic DNA. Translation: CAA05353.1.

3D structure databases

ProteinModelPortaliO52921.
SMRiO52921. Positions 342-452.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi683083.C414_000230052.

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.
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...

Publicationsi

  1. "Cloning and characterization of the gene encoding the primary sigma-factor of Campylobacter jejuni."
    Wosten M.M., Boeve M., Gaastra W., van der Zeijst B.A.
    FEMS Microbiol. Lett. 162:97-103(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: 129108Imported.

Entry informationi

Entry nameiO52921_CAMJU
AccessioniPrimary (citable) accession number: O52921
Entry historyi
Integrated into UniProtKB/TrEMBL: June 1, 1998
Last sequence update: June 1, 1998
Last modified: June 8, 2016
This is version 83 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.