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Protein

RNA polymerase sigma factor RpoD

Gene

sigA

Organism
Rhizobium etli
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 bindingi645 – 664H-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
OrganismiRhizobium etliImported
Taxonomic identifieri29449 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeRhizobium/Agrobacterium groupRhizobium

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

STRINGi347834.RHE_CH02950.

Structurei

3D structure databases

ProteinModelPortaliP95597.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini475 – 488RNA_pol_sigma70InterPro annotationAdd BLAST14
Domaini644 – 670RNA_pol_sigma70InterPro annotationAdd BLAST27

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni451 – 521Sigma-70 factor domain-2UniRule annotationAdd BLAST71
Regioni530 – 606Sigma-70 factor domain-3UniRule annotationAdd BLAST77
Regioni619 – 672Sigma-70 factor domain-4UniRule annotationAdd BLAST54

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi475 – 478Interaction with polymerase core subunit RpoCUniRule annotation4

Sequence similaritiesi

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

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.

P95597-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MATKVKENED AEVERDGATD GPLLDLSDDA VKKMIKAAKK RGYVTMDELN
60 70 80 90 100
AVLPSEEVTS EQIEDTMSML SDMGINVIED EEAEEAGASG GGDDDDAGGD
110 120 130 140 150
EDSEGGELAP SAGTALATAK KKEPTDRTDD PVRMYLREMG SVELLSREGE
160 170 180 190 200
IAIAKRIEAG RETMIAGLCE SPLTFQALII WRDELNEGTT LLREIIDLET
210 220 230 240 250
TYSGPEAKAA PQFQSPEKIE ADRKAAEEKE KTRRARSGDD DITDVGGEGL
260 270 280 290 300
PPEEEEEDED ESNLSLAAME AELRPQVMET LDIIAETYKK LRKLQDQQVE
310 320 330 340 350
QRLAATGTLS SAQERRYKEL KDELIKAVKS LSLNQNRIDA LVEQLYDINK
360 370 380 390 400
RLVQNEGRLL RLAESYAVKR DSFLEQDQGA ELDPNWMKSI GNLAARGWKE
410 420 430 440 450
FAKAENTTIR DIRQEIQNLA TETGISISEF RRIVHMVQKG EREARIAKKE
460 470 480 490 500
MVEANLRLVI SIAKKYTNRG LQFLDLIQEG NIGLMKAVDK FEYRRGYKFS
510 520 530 540 550
TYATWWIRQA ITRSIADQAR TIRIPVHMIE TINKIVRTSR QMLHEIGREP
560 570 580 590 600
TPEELAEKLA MPLEKVRKVL KIAKEPISLE TPVGDEEDSH LGDFIEDKNA
610 620 630 640 650
LLPIDAAIQA NLRETTTRVL ASLTPREERV LRMRFGIGMN TDHTLEEVGQ
660 670 680
QFSVTRERIR QIEAKALRKL KHPSRSRKLR SFLDS
Length:685
Mass (Da):77,181
Last modified:May 1, 1997 - v1
Checksum:i36577060A65D80EE
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y08818 Genomic DNA. Translation: CAA70052.1.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y08818 Genomic DNA. Translation: CAA70052.1.

3D structure databases

ProteinModelPortaliP95597.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi347834.RHE_CH02950.

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 nameiP95597_RHIET
AccessioniPrimary (citable) accession number: P95597
Entry historyi
Integrated into UniProtKB/TrEMBL: May 1, 1997
Last sequence update: May 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.