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Protein

RNA polymerase sigma factor RpoD

Gene

sigA

Organism
Rhodobacter sphaeroides (Rhodopseudomonas sphaeroides)
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. This sigma factor is the primary sigma factor during exponential growth.SAAS annotation

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi626 – 645H-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 RpoDUniRule annotation
Alternative name(s):
Sigma-70UniRule annotation
Gene namesi
Name:sigAImported
Synonyms:rpoDUniRule annotation
OrganismiRhodobacter sphaeroides (Rhodopseudomonas sphaeroides)Imported
Taxonomic identifieri1063 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeRhodobacter

Subcellular locationi

  • Cytoplasm UniRule annotationSAAS annotation

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

CytoplasmUniRule annotationSAAS annotation

Interactioni

Subunit structurei

Interacts transiently with the RNA polymerase catalytic core.UniRule annotationSAAS annotation

Protein-protein interaction databases

STRINGi349102.Rsph17025_0841.

Structurei

3D structure databases

ProteinModelPortaliP77940.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini456 – 469RNA_pol_sigma70InterPro annotationAdd BLAST14
Domaini625 – 651RNA_pol_sigma70InterPro annotationAdd BLAST27

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni432 – 502Sigma-70 factor domain-2UniRule annotationAdd BLAST71
Regioni511 – 587Sigma-70 factor domain-3UniRule annotationAdd BLAST77
Regioni600 – 653Sigma-70 factor domain-4UniRule annotationAdd BLAST54

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili411 – 438Sequence analysisAdd BLAST28

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi456 – 459Interaction with polymerase core subunit RpoCUniRule annotation4

Sequence similaritiesi

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

Keywords - Domaini

Coiled coilSequence analysis

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.
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. 2 hits.
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.

P77940-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAVKDTDDGK PEDQDAETSL DMSQAAVKRM IAEAERGYIT YDQLNTVLPQ
60 70 80 90 100
DQVSSEQIED VMAMLSEMGI NVIENEEAEE GEPAGELVEQ GSGSREIAVA
110 120 130 140 150
GTQGETLDRT DDPVRMYLRE MGSVELLSRE GEIAIAKRIE AGRNTMIAGL
160 170 180 190 200
CESPLTFQAI TIWRDELLSE DILLRDVIDL EATFGRSLDG DGDDEIDGPE
210 220 230 240 250
IDEVEVAAAR AAPRRSTSSE PELDADGNPI SRAEEEDEDD EASAMSLAAM
260 270 280 290 300
EAALKPRVLE TLELIARDYG KLAEMQNRRM SATLNDHIRF TTEDEAAYQK
310 320 330 340 350
LRSEIVLLVN ELHLHNNRIE ALIDQLYGIN RKIMSINSAM VKLADAARIN
360 370 380 390 400
RREFIDEYQG YELDPMWAER MAAKVGRGWQ TLMEKSRDRV EDLRGEMAQV
410 420 430 440 450
GQYVGVDISE FRRIVNQVQK GEKEARQAKK EMVEANLRLV ISIAKKYTNR
460 470 480 490 500
GLQFLDLIQE GNIGLMKAVD KFEYRRGYKF STYATWWIRQ AITRSIADQA
510 520 530 540 550
RTIRIPVHMI ETINKLVRTG RQMLHEIGRE PTPEELAEKL QMPLEKVRKV
560 570 580 590 600
MKIAKEPISL ETPIGDEEDS QLGDFIEDKN AILPLDSAIQ ENLKETTTRV
610 620 630 640 650
LASLTPREER VLRMRFGIGM NTDHTLEEVG QQFSVTRERL RQIEAKALRK
660
LKHPSRSRKL RSFLDQ
Length:666
Mass (Da):75,541
Last modified:February 1, 1997 - v1
Checksum:i7150A0C9891FA557
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U67425 Genomic DNA. Translation: AAC44891.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U67425 Genomic DNA. Translation: AAC44891.1.

3D structure databases

ProteinModelPortaliP77940.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi349102.Rsph17025_0841.

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.
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. 2 hits.
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 nameiP77940_RHOSH
AccessioniPrimary (citable) accession number: P77940
Entry historyi
Integrated into UniProtKB/TrEMBL: February 1, 1997
Last sequence update: February 1, 1997
Last modified: October 5, 2016
This is version 88 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.