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P57163 (RPOD_BUCAI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 89. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
RNA polymerase sigma factor RpoD
Alternative name(s):
Sigma-70
Gene names
Name:rpoD
Ordered Locus Names:BU055
OrganismBuchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (Acyrthosiphon pisum symbiotic bacterium) [Reference proteome] [HAMAP]
Taxonomic identifier107806 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeBuchnera

Protein attributes

Sequence length612 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

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 By similarity. HAMAP-Rule MF_00963

Subunit structure

Interacts transiently with the RNA polymerase catalytic core By similarity.

Subcellular location

Cytoplasm Potential HAMAP-Rule MF_00963.

Sequence similarities

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

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
   Cellular componentCytoplasm
   LigandDNA-binding
   Molecular functionSigma factor
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processtranscription initiation from bacterial-type RNA polymerase promoter

Inferred from electronic annotation. Source: UniProtKB-HAMAP

   Cellular_componentcytoplasm

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functionDNA binding

Inferred from electronic annotation. Source: UniProtKB-HAMAP

sequence-specific DNA binding transcription factor activity

Inferred from electronic annotation. Source: InterPro

sigma factor activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 612612RNA polymerase sigma factor RpoD HAMAP-Rule MF_00963
PRO_0000093877

Regions

DNA binding572 – 59120H-T-H motif By similarity
Region378 – 44871Sigma-70 factor domain-2 By similarity
Region457 – 53377Sigma-70 factor domain-3 By similarity
Region546 – 59954Sigma-70 factor domain-4 By similarity
Motif402 – 4054Interaction with polymerase core subunit RpoC HAMAP-Rule MF_00963

Sequences

Sequence LengthMass (Da)Tools
P57163 [UniParc].

Last modified December 1, 2000. Version 1.
Checksum: 6BDD03CC2E1D112A

FASTA61271,050
        10         20         30         40         50         60 
MDQNPQSQLK LLVTHGKEQG YLTYSEVNDH LPEDIIDSEQ IDDIIQMIND MGIPVVEEAP 

        70         80         90        100        110        120 
DADDLILNEI NTDTDEDAVE AATQVLSSVE SELGRTTDPV RMYMREMGTV ELLTREGEID 

       130        140        150        160        170        180 
IAKRIEEGIN QVQCSVSEYP EAITYLLEQY DRVKTGQIRL SDIITGFVDP NAEEIFPPTA 

       190        200        210        220        230        240 
IHIGSELLDE QQNNEEDEEN NQEDHEDDHS IDPELANEKF SELRIQYNNT NNTIKNKNRT 

       250        260        270        280        290        300 
HKDSLLEIYN LSEVFKQFRL VPKQFDHLVN NMRHMMERVR KQERIIIKLC VEICKMPKKN 

       310        320        330        340        350        360 
FIKIFPIKKI NYLWFIREQN TNQPWSENLK KVKEDVFISV KKLIKIEEET GLTIEQVKDI 

       370        380        390        400        410        420 
NKRMSIGEAK ARRAKKEMVE ANLRLVISIA KKYTNRGLQF LDLIQEGNIG LMKAVDKFEY 

       430        440        450        460        470        480 
RRGYKFSTYA TWWIRQAITR SIADQARTIR IPVHMIETIN KLNRISRQML QEIGREPTPE 

       490        500        510        520        530        540 
ELSEKMLIPE DKIRKVLKIA KEPISMETPI GDDDDSHLGD FIEDTTLELP LDSATSESLR 

       550        560        570        580        590        600 
SATHDVLSGL TAREAKVLRM RFGIDMNTDH TLEEVGKQFD VTRERIRQIE AKALRKLRHP 

       610 
SRSEVLRSFL DD 

« Hide

References

[1]"Genome sequence of the endocellular bacterial symbiont of aphids Buchnera sp. APS."
Shigenobu S., Watanabe H., Hattori M., Sakaki Y., Ishikawa H.
Nature 407:81-86(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: APS.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
BA000003 Genomic DNA. Translation: BAB12778.1.
RefSeqNP_239892.1. NC_002528.1.

3D structure databases

ProteinModelPortalP57163.
SMRP57163. Positions 116-445, 545-612.
ModBaseSearch...
MobiDBSearch...

Proteomic databases

PRIDEP57163.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAB12778; BAB12778; BAB12778.
GeneID1109462.
KEGGbuc:BU055.
PATRIC21243616. VBIBucAph127364_0064.

Phylogenomic databases

eggNOGCOG0568.
HOGENOMHOG000270272.
KOK03086.
OMAFDFLVNS.
OrthoDBEOG6XHC70.

Enzyme and pathway databases

BioCycBAPH107806:GBZJ-55-MONOMER.

Family and domain databases

Gene3D1.10.10.10. 2 hits.
HAMAPMF_00963. Sigma70_RpoD_SigA.
InterProIPR014284. 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.
IPR007631. RNA_pol_sigma_70_non-ess.
IPR007127. RNA_pol_sigma_70_r1_1.
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]
PfamPF04546. Sigma70_ner. 1 hit.
PF03979. Sigma70_r1_1. 1 hit.
PF00140. Sigma70_r1_2. 1 hit.
PF04542. Sigma70_r2. 1 hit.
PF04539. Sigma70_r3. 1 hit.
PF04545. Sigma70_r4. 1 hit.
[Graphical view]
PRINTSPR00046. SIGMA70FCT.
SUPFAMSSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsTIGR02393. RpoD_Cterm. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEPS00715. SIGMA70_1. 1 hit.
PS00716. SIGMA70_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameRPOD_BUCAI
AccessionPrimary (citable) accession number: P57163
Entry history
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: December 1, 2000
Last modified: May 14, 2014
This is version 89 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

Buchnera aphidicola (subsp. Acyrthosiphon pisum)

Buchnera aphidicola (subsp. Acyrthosiphon pisum): entries and gene names