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P57163

- RPOD_BUCAI

UniProt

P57163 - RPOD_BUCAI

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Protein
RNA polymerase sigma factor RpoD
Gene
rpoD, BU055
Organism
Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (Acyrthosiphon pisum symbiotic bacterium)
Status
Reviewed - 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. This sigma factor is the primary sigma factor during exponential growth By similarity.UniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi572 – 59120H-T-H motif By similarity
Add
BLAST

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-HAMAP
  2. sequence-specific DNA binding transcription factor activity Source: InterPro
  3. sigma factor activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. transcription initiation from bacterial-type RNA polymerase promoter Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Sigma factor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciBAPH107806:GBZJ-55-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase sigma factor RpoD
Alternative name(s):
Sigma-70
Gene namesi
Name:rpoD
Ordered Locus Names:BU055
OrganismiBuchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (Acyrthosiphon pisum symbiotic bacterium)
Taxonomic identifieri107806 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeBuchnera
ProteomesiUP000001806: Chromosome

Subcellular locationi

Cytoplasm Reviewed prediction UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 612612RNA polymerase sigma factor RpoDUniRule annotation
PRO_0000093877Add
BLAST

Proteomic databases

PRIDEiP57163.

Interactioni

Subunit structurei

Interacts transiently with the RNA polymerase catalytic core By similarity.

Structurei

3D structure databases

ProteinModelPortaliP57163.
SMRiP57163. Positions 116-445, 545-612.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni378 – 44871Sigma-70 factor domain-2 By similarity
Add
BLAST
Regioni457 – 53377Sigma-70 factor domain-3 By similarity
Add
BLAST
Regioni546 – 59954Sigma-70 factor domain-4 By similarity
Add
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi402 – 4054Interaction with polymerase core subunit RpoCUniRule annotation

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0568.
HOGENOMiHOG000270272.
KOiK03086.
OMAiFDFLVNS.
OrthoDBiEOG6XHC70.

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.
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]
PfamiPF04546. 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]
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.

P57163-1 [UniParc]FASTAAdd to Basket

« Hide

MDQNPQSQLK LLVTHGKEQG YLTYSEVNDH LPEDIIDSEQ IDDIIQMIND    50
MGIPVVEEAP DADDLILNEI NTDTDEDAVE AATQVLSSVE SELGRTTDPV 100
RMYMREMGTV ELLTREGEID IAKRIEEGIN QVQCSVSEYP EAITYLLEQY 150
DRVKTGQIRL SDIITGFVDP NAEEIFPPTA IHIGSELLDE QQNNEEDEEN 200
NQEDHEDDHS IDPELANEKF SELRIQYNNT NNTIKNKNRT HKDSLLEIYN 250
LSEVFKQFRL VPKQFDHLVN NMRHMMERVR KQERIIIKLC VEICKMPKKN 300
FIKIFPIKKI NYLWFIREQN TNQPWSENLK KVKEDVFISV KKLIKIEEET 350
GLTIEQVKDI NKRMSIGEAK ARRAKKEMVE ANLRLVISIA KKYTNRGLQF 400
LDLIQEGNIG LMKAVDKFEY RRGYKFSTYA TWWIRQAITR SIADQARTIR 450
IPVHMIETIN KLNRISRQML QEIGREPTPE ELSEKMLIPE DKIRKVLKIA 500
KEPISMETPI GDDDDSHLGD FIEDTTLELP LDSATSESLR SATHDVLSGL 550
TAREAKVLRM RFGIDMNTDH TLEEVGKQFD VTRERIRQIE AKALRKLRHP 600
SRSEVLRSFL DD 612
Length:612
Mass (Da):71,050
Last modified:December 1, 2000 - v1
Checksum:i6BDD03CC2E1D112A
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000003 Genomic DNA. Translation: BAB12778.1.
RefSeqiNP_239892.1. NC_002528.1.

Genome annotation databases

EnsemblBacteriaiBAB12778; BAB12778; BAB12778.
GeneIDi1109462.
KEGGibuc:BU055.
PATRICi21243616. VBIBucAph127364_0064.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
BA000003 Genomic DNA. Translation: BAB12778.1 .
RefSeqi NP_239892.1. NC_002528.1.

3D structure databases

ProteinModelPortali P57163.
SMRi P57163. Positions 116-445, 545-612.
ModBasei Search...
MobiDBi Search...

Proteomic databases

PRIDEi P57163.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAB12778 ; BAB12778 ; BAB12778 .
GeneIDi 1109462.
KEGGi buc:BU055.
PATRICi 21243616. VBIBucAph127364_0064.

Phylogenomic databases

eggNOGi COG0568.
HOGENOMi HOG000270272.
KOi K03086.
OMAi FDFLVNS.
OrthoDBi EOG6XHC70.

Enzyme and pathway databases

BioCyci BAPH107806:GBZJ-55-MONOMER.

Family and domain databases

Gene3Di 1.10.10.10. 2 hits.
HAMAPi MF_00963. Sigma70_RpoD_SigA.
InterProi IPR014284. 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 ]
Pfami PF04546. 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 ]
PRINTSi PR00046. SIGMA70FCT.
SUPFAMi SSF88659. SSF88659. 2 hits.
SSF88946. SSF88946. 1 hit.
TIGRFAMsi TIGR02393. RpoD_Cterm. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEi PS00715. SIGMA70_1. 1 hit.
PS00716. SIGMA70_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  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.

Entry informationi

Entry nameiRPOD_BUCAI
AccessioniPrimary (citable) accession number: P57163
Entry historyi
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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Buchnera aphidicola (subsp. Acyrthosiphon pisum)
    Buchnera aphidicola (subsp. Acyrthosiphon pisum): entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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