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Protein

RNA polymerase sigma factor SigA

Gene

sigA

Organism
Synechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (Agmenellum quadruplicatum)
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 bindingi336 – 35520H-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

Enzyme and pathway databases

BioCyciSSP32049:GKF7-2015-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
RNA polymerase sigma factor SigAUniRule annotation
Gene namesi
Name:sigAUniRule annotationImported
Synonyms:rpoDImported
Ordered Locus Names:SYNPCC7002_A2014Imported
OrganismiSynechococcus sp. (strain ATCC 27264 / PCC 7002 / PR-6) (Agmenellum quadruplicatum)Imported
Taxonomic identifieri32049 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
Proteomesi
  • UP000001688 Componenti: Chromosome

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

STRINGi32049.SYNPCC7002_A2014.

Structurei

3D structure databases

SMRiQ59965. Positions 126-210, 297-374.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini167 – 18014RNA_pol_sigma70InterPro annotationAdd
BLAST
Domaini335 – 36127RNA_pol_sigma70InterPro annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni143 – 21371Sigma-70 factor domain-2UniRule annotationAdd
BLAST
Regioni222 – 29776Sigma-70 factor domain-3UniRule annotationAdd
BLAST
Regioni310 – 36354Sigma-70 factor domain-4UniRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili79 – 10830Sequence analysisAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi167 – 1704Interaction 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

Keywords - Domaini

Coiled coilSequence analysis

Phylogenomic databases

eggNOGiENOG4105DG1. Bacteria.
COG0568. LUCA.
HOGENOMiHOG000270273.
KOiK03086.
OMAiTAQEEIM.
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.
IPR013325. RNA_pol_sigma_r2.
IPR013324. RNA_pol_sigma_r3_r4.
IPR012760. RNA_pol_sigma_RpoD_C.
IPR017848. RNA_pol_sigma_RpoD_cyanobac.
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.
TIGR02997. Sig70-cyanoRpoD. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEiPS00715. SIGMA70_1. 1 hit.
PS00716. SIGMA70_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q59965-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTQATNPVLD QTRNEGDIDY SALAEAQIKE GTDYVELTLP TKKSRKAKTS
60 70 80 90 100
RRKETATKKK PYTEDSIRIY LQEIGRIRLL RAEEEIELAR KIADLLELER
110 120 130 140 150
MREQLTEHES RVPTDKEWAE AAGMPLKDFR RRLFHGRRAK DKMVQSNLRL
160 170 180 190 200
VVSIAKKYMN RGLSFQDLIQ EGSLGLIRAA EKFDHEKGYK FSTYATWWIR
210 220 230 240 250
QAITRAIADQ SRTIRLPVHL YETISRIKKT TKILSQELGR KPTEEEIAER
260 270 280 290 300
MEMTIEKLRF IAKSAQLPIS LETPIGKEED SRLGDFIEAD GETPEDQVSK
310 320 330 340 350
SLLREDLENV LDTLSARERD VLRLRYGLDD GRMKTLEEIG QIFNVTRERI
360 370
RQIEAKALRK LRHPNRNSIL KEYIR
Length:375
Mass (Da):43,740
Last modified:November 1, 1996 - v1
Checksum:i1E3FC5C369D16DB8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U15574 Genomic DNA. Translation: AAB41506.1.
CP000951 Genomic DNA. Translation: ACB00001.1.
RefSeqiWP_012307623.1. NC_010475.1.

Genome annotation databases

EnsemblBacteriaiACB00001; ACB00001; SYNPCC7002_A2014.
KEGGisyp:SYNPCC7002_A2014.
PATRICi23818668. VBISynSp37135_2273.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U15574 Genomic DNA. Translation: AAB41506.1.
CP000951 Genomic DNA. Translation: ACB00001.1.
RefSeqiWP_012307623.1. NC_010475.1.

3D structure databases

SMRiQ59965. Positions 126-210, 297-374.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi32049.SYNPCC7002_A2014.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACB00001; ACB00001; SYNPCC7002_A2014.
KEGGisyp:SYNPCC7002_A2014.
PATRICi23818668. VBISynSp37135_2273.

Phylogenomic databases

eggNOGiENOG4105DG1. Bacteria.
COG0568. LUCA.
HOGENOMiHOG000270273.
KOiK03086.
OMAiTAQEEIM.
OrthoDBiEOG6XHC70.

Enzyme and pathway databases

BioCyciSSP32049:GKF7-2015-MONOMER.

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.
IPR017848. RNA_pol_sigma_RpoD_cyanobac.
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.
TIGR02997. Sig70-cyanoRpoD. 1 hit.
TIGR02937. sigma70-ECF. 1 hit.
PROSITEiPS00715. SIGMA70_1. 1 hit.
PS00716. SIGMA70_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Bryant D.A.
    Submitted (OCT-1994) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: PCC 7002Imported.
  2. "Complete sequence of Synechococcus sp. PCC 7002."
    Li T., Zhao J., Zhao C., Liu Z., Zhao F., Marquardt J., Nomura C.T., Persson S., Detter J.C., Richardson P.M., Lanz C., Schuster S.C., Wang J., Li S., Huang X., Cai T., Yu Z., Luo J., Zhao J., Bryant D.A.
    Submitted (FEB-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 27264 / PCC 7002 / PR-6Imported.
  3. Cited for: NUCLEOTIDE SEQUENCE.
    Strain: PCC 7002Imported.
  4. "The sigA gene encoding the major sigma factor of RNA polymerase from the marine cyanobacterium Synechococcus sp. strain PCC 7002: cloning and characterization."
    Caslake L.F., Bryant D.A.
    Microbiology 142:0-0(0) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: PCC 7002Imported.

Entry informationi

Entry nameiQ59965_SYNP2
AccessioniPrimary (citable) accession number: Q59965
Entry historyi
Integrated into UniProtKB/TrEMBL: November 1, 1996
Last sequence update: November 1, 1996
Last modified: June 8, 2016
This is version 110 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported

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.