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Protein

RNA polymerase sigma factor SigA

Gene

rpoD

Organism
Renibacterium salmoninarum
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 bindingi423 – 442H-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 SigAUniRule annotation
Gene namesi
Name:rpoDImported
Synonyms:sigAUniRule annotation
OrganismiRenibacterium salmoninarumImported
Taxonomic identifieri1646 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaMicrococcalesMicrococcaceaeRenibacterium

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

STRINGi288705.RSal33209_2425.

Structurei

3D structure databases

ProteinModelPortaliP95644.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini253 – 266RNA_pol_sigma70InterPro annotationAdd BLAST14
Domaini422 – 448RNA_pol_sigma70InterPro annotationAdd BLAST27

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni229 – 299Sigma-70 factor domain-2UniRule annotationAdd BLAST71
Regioni308 – 384Sigma-70 factor domain-3UniRule annotationAdd BLAST77
Regioni397 – 450Sigma-70 factor domain-4UniRule annotationAdd BLAST54

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi253 – 256Interaction with polymerase core subunit RpoCUniRule annotation4

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.

P95644-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSPTARKISA TAAPEDSASA ETSTARTRAA VKDAPVAQTA AVKTLAAKKP
60 70 80 90 100
SAKKVTEIPD AVTIEEKLTP AQKRAATAAA KKAALSEDDA AVKPTRGRKP
110 120 130 140 150
KADDSAESAD DESTEGVADS AETETADAPE EAEETAGSGF VYSDADDDDA
160 170 180 190 200
PVQQVMSAGA TADPVKDYLK QIGKVALLNA EQEVDLALRI EAGLYAEEKL
210 220 230 240 250
AADDGKITEK LNREYQWVIH DGKRAKNHLL EANLRLVVSL AKRYTGRGML
260 270 280 290 300
FLDLIQEGNM GLIRAVEKFD YTKGFKFSTY ATWWIRQAIT RAMADQARTI
310 320 330 340 350
RIPVHMVEVI NKLARVQRQM LQDLGREPTP EELALELDMT PEKVVEVQKY
360 370 380 390 400
GREPISLHTP LGEDGDSEFG DLIEDSEAVV PADAVSFTLL QEQLHSVLDT
410 420 430 440 450
LSEREAGVVA MRFGLTDGQP KTLDEIGKVY GVTRERIRQI ESKTMSKLRH
460
PSRSQVLRDY LD
Length:462
Mass (Da):50,505
Last modified:July 1, 1997 - v2
Checksum:iD4194CFDC140295A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y10835 Genomic DNA. Translation: CAA71796.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y10835 Genomic DNA. Translation: CAA71796.1.

3D structure databases

ProteinModelPortaliP95644.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi288705.RSal33209_2425.

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 nameiP95644_RENSA
AccessioniPrimary (citable) accession number: P95644
Entry historyi
Integrated into UniProtKB/TrEMBL: May 1, 1997
Last sequence update: July 1, 1997
Last modified: October 5, 2016
This is version 88 of the entry and version 2 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.