P55993 (RPOD_HELPY) 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:	HP_0088

Organism

Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

Taxonomic identifier

85962 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Epsilonproteobacteria › Campylobacterales › Helicobacteraceae › Helicobacter

Protein attributes

Sequence length	671 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 Reference proteome
Gene Ontology (GO)
Biological process	transcription initiation, DNA-dependent 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 – 671	671	RNA polymerase sigma factor rpoD		PRO_0000093890
Regions
	DNA binding	629 – 648	20	H-T-H motif By similarity
	Motif	460 – 473	14	Polymerase core binding Potential

Sequences

	Sequence		Length	Mass (Da)
	P55993 [UniParc]. Last modified November 1, 1997. Version 1. Checksum: 25992A478D90A27A	FASTA	671	77,737
	10 20 30 40 50 60 MKKKANEEKA QKRAKTEAKA EATQENKTKE NNKAKESKIK ESKIKEAKAK EPIPVKKLSF 70 80 90 100 110 120 NEALEELFAN SLSDCVSYES IIQISAKVPT LAQIKKIKEL CQKYQKKLVS SSEYAKKLNA 130 140 150 160 170 180 IDKIKKTEEK QKVLDEELED GYDFLKEKDF LEWSRSDSPV RMYLREMGDI KLLSKDEEIE 190 200 210 220 230 240 LSKQIRLGED IILDAICSVP YLIDFIYAYK DALINRERRV KELFRSFDDD DENSVSDSKK 250 260 270 280 290 300 DEDNEEDEEN EERKKVVSEK DKKRVEKVQE SFKALDKAKK EWLKALEAPI DEREDELVRS 310 320 330 340 350 360 LTLAYKRQTL KDRLYDLEPT SKLINELVKT METTLKSGDG FEKELKRLEY KLPLFNDTLI 370 380 390 400 410 420 ANHKKILANI TNMTKEDIIA QVPEATMVSV YMDLKKLFLT KEASEEGFDL APNKLKEILE 430 440 450 460 470 480 QIKRGKLISD RAKNKMAKSN LRLVVSIAKR FTSRGLPFLD LIQEGNIGLM KAVDKFEHEK 490 500 510 520 530 540 GFKFSTYATW WIKQAISRAI ADQARTIRIP IHMIDTINRI NKVMRKHIQE NGKEPDLEVV 550 560 570 580 590 600 AEEVGLSLDK VKNVIKVTKE PISLETPVGN DDDGKFGDFV EDKNIVSSID HIMREDLKAQ 610 620 630 640 650 660 IESVLDQLNE REKAVIRMRF GLLDDESDRT LEEIGKELNV TRERVRQIES SAIKKLRSPQ 670 YGRILRNYLR I

References

[1]

"The complete genome sequence of the gastric pathogen Helicobacter pylori." Tomb J.-F., White O., Kerlavage A.R., Clayton R.A., Sutton G.G., Fleischmann R.D., Ketchum K.A., Klenk H.-P., Gill S.R., Dougherty B.A., Nelson K.E., Quackenbush J., Zhou L., Kirkness E.F., Peterson S.N., Loftus B.J., Richardson D.L., Dodson R.J. , Khalak H.G., Glodek A., McKenney K., FitzGerald L.M., Lee N., Adams M.D., Hickey E.K., Berg D.E., Gocayne J.D., Utterback T.R., Peterson J.D., Kelley J.M., Cotton M.D., Weidman J.F., Fujii C., Bowman C., Watthey L., Wallin E., Hayes W.S., Borodovsky M., Karp P.D., Smith H.O., Fraser C.M., Venter J.C. Nature 388:539-547(1997) [PubMed: 9252185] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700392 / 26695.

+

Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE000511 Genomic DNA. Translation: AAD07156.1.
PIR	H64530.
RefSeq	NP_206888.1. NC_000915.1.
3D structure databases
ProteinModelPortal	P55993.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-3055N.
MINT	MINT-163797.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	898992.
GenomeReviews	Gene locus HP_0088 in contig AE000511_GR.
KEGG	hpy:HP0088.
NMPDR	fig|85962.1.peg.86.
PATRIC	20591385. VBIHelPyl33062_0093.
TIGR	HP_0088.
Phylogenomic databases
HOGENOM	HBG745096.
OMA	YKLPLFN.
ProtClustDB	PRK05658.
Family and domain databases
InterPro	IPR014284. RNA_pol_sigma-70. 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. IPR011991. WHTH_trsnscrt_rep_DNA-bd. [Graphical view]
Gene3D	G3DSA:1.10.10.10. Wing_hlx_DNA_bd. 2 hits.
KO	K03086.
Pfam	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_HELPY

Accession

Primary (citable) accession number: P55993

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1997
Last modified:	January 25, 2012
This is version 76 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program