Q68VQ5 (RPOD_RICTY) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
RNA polymerase sigma factor RpoD

Alternative name(s):
Sigma-70

Gene names

Name:	rpoD
Ordered Locus Names:	RT0847

Organism

Rickettsia typhi (strain ATCC VR-144 / Wilmington) [Complete proteome] [HAMAP]

Taxonomic identifier

257363 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Alphaproteobacteria › Rickettsiales › Rickettsiaceae › Rickettsieae › Rickettsia › typhus group › Rickettsia typhi

Protein attributes

Sequence length	635 AA.
Sequence status	Complete.
Protein existence	Inferred 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 is the primary sigma factor of this bacterium By similarity.
Sequence similarities	Belongs to the sigma-70 factor family.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Ligand	DNA-binding
Molecular function	Sigma factor
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	DNA-dependent transcription, initiation Inferred from electronic annotation. Source: InterPro
Molecular_function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW sequence-specific DNA binding transcription factor activity Inferred from electronic annotation. Source: InterPro sigma factor activity Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 635	635	RNA polymerase sigma factor RpoD		PRO_0000286506
Regions
	DNA binding	581 – 600	20	H-T-H motif By similarity
	Motif	410 – 423	14	Polymerase core binding Potential

Sequences

	Sequence		Length	Mass (Da)
	Q68VQ5 [UniParc]. Last modified October 11, 2004. Version 1. Checksum: D39F4DC85DBA50D1	FASTA	635	73,113
	10 20 30 40 50 60 MSNSNIDNDP AKIDSLLRKA KSKKIPVTYD DINKALPLNK NPSIRQLEEA ILKFSDAGVD 70 80 90 100 110 120 ILESNEDDEI KLDIGIDEEF KLSTNVDNES EDEVEEENIG STDDPVRLYL KDMGGVDLLT 130 140 150 160 170 180 RENEVEIAKR IEEGRKTMTA SLCRSPVAMR CFIVWYEDLV NEKMLLRDLI DLEANMLHDE 190 200 210 220 230 240 VHENDEEHNS ETEVEEHEDN HLSMSRVETQ ILHNIIDRMK KISFICEELL IEAKKCYEES 250 260 270 280 290 300 FDPKVLQNSR KYNNNLELLI HEVSEIHFNS KRTEEILGKM YGINRDLINK ETAFLKLAEK 310 320 330 340 350 360 YGVTRQNFLD EYIGSVINAA WKEKMLKNKK VAWKELITKE SDYIDQMINE LSVIESNTGL 370 380 390 400 410 420 LVNDFKKLVN TIQKSERQTL QAKKDMIEAN LRLVISIAKK YANRGLQFLD LIQEGNIGLM 430 440 450 460 470 480 KAVDKFEYRR GYKFSTYATW WIRQAITRAI ADQARTIRIP VHMIETINKI LRTSRQMLNE 490 500 510 520 530 540 LGYEPTATEI ANRLSMPLDK VRKVMKIAKE PISLENPVGD DSDGGQLGDF IEDKNAVAPI 550 560 570 580 590 600 DAAIQSNLRE VTTRVLATLT PREERVLRMR FGIGMNTDHT LEEVGQQFKV TRERIRQIES 610 620 630 KALRKLQHPI RSKKLNSFRN GGKRGDGNPS DLLEA

References

[1]

"Complete genome sequence of Rickettsia typhi and comparison with sequences of other Rickettsiae." McLeod M.P., Qin X., Karpathy S.E., Gioia J., Highlander S.K., Fox G.E., McNeill T.Z., Jiang H., Muzny D., Jacob L.S., Hawes A.C., Sodergren E., Gill R., Hume J., Morgan M., Fan G., Amin A.G., Gibbs R.A. , Hong C., Yu X.-J., Walker D.H., Weinstock G.M. J. Bacteriol. 186:5842-5855(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC VR-144 / Wilmington.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE017197 Genomic DNA. Translation: AAU04301.1.
RefSeq	YP_067783.1. NC_006142.1.
3D structure databases
HSSP	HSSP built from PDB template 1TLH based on UniProtKB P00579.
ProteinModelPortal	Q68VQ5.
SMR	Q68VQ5. Positions 377-514, 555-618.
ModBase	Search...
Protein-protein interaction databases
STRING	257363.RT0847.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	AAU04301; AAU04301; RT0847.
GeneID	2958554.
KEGG	rty:RT0847.
PATRIC	17910948. VBIRicTyp34752_0865.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0568.
HOGENOM	HOG000270272.
KO	K03086.
OMA	KISFICE.
ProtClustDB	PRK05658.
Enzyme and pathway databases
BioCyc	RTYP257363:GJEQ-887-MONOMER.
Family and domain databases
Gene3D	1.10.10.10. 2 hits.
InterPro	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. IPR011991. WHTH_DNA-bd_dom. [Graphical view]
Pfam	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]
PRINTS	PR00046. SIGMA70FCT.
SUPFAM	SSF88946. Sigma_r2. 1 hit. SSF88659. Sigma_r3_r4. 2 hits.
TIGRFAMs	TIGR02393. RpoD_Cterm. 1 hit. TIGR02937. sigma70-ECF. 1 hit.
PROSITE	PS00715. SIGMA70_1. 1 hit. PS00716. SIGMA70_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RPOD_RICTY

Accession

Primary (citable) accession number: Q68VQ5

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 15, 2007
Last sequence update:	October 11, 2004
Last modified:	May 1, 2013
This is version 56 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program