P0A0J0 (RPOD_STAA8) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
RNA polymerase sigma factor RpoD

Gene names

Name:	rpoD
Synonyms:	plaC, sigA
Ordered Locus Names:	SAOUHSC_01662

Organism

Staphylococcus aureus (strain NCTC 8325) [Reference proteome] [HAMAP]

Taxonomic identifier

93061 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Firmicutes › Bacilli › Bacillales › Staphylococcaceae › Staphylococcus › Staphylococcus aureus › Staphylococcus aureus subsp. aureus

Protein attributes

Sequence length	368 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

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 may be the primary sigma factor of this bacterium.
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	3D-structure Complete proteome Reference 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 – 368

368

RNA polymerase sigma factor RpoD

PRO_0000093916

Regions

DNA binding

329 – 348

20

H-T-H motif By similarity

Motif

159 – 172

14

Polymerase core binding Potential

Natural variations

Natural variant

209

1

P → S in plaC1 mutation; results in a narrower specificity for promoters.

Secondary structure

1

.

.

.

.

.

.

.

.

.

.

368

Helix Strand Turn

Details...

Helix

297 – 305

9

Helix

309 – 319

11

Turn

320 – 323

4

Helix

329 – 336

8

Helix

340 – 355

16

Sequences

	Sequence		Length	Mass (Da)
	P0A0J0 [UniParc]. Last modified March 1, 2005. Version 1. Checksum: AB029CA4F5A93A55	FASTA	368	42,171
	10 20 30 40 50 60 MSDNTVKIKK QTIDPTLTLE DVKKQLIEKG KKEGHLSHEE IAEKLQNFDI DSDQMDDFFD 70 80 90 100 110 120 QLNDNDISLV NEKDSSDTDE KLNPSDLSAP PGVKINDPVR MYLKEIGRVN LLSAQEEIEL 130 140 150 160 170 180 AKRIEQGDEV AKSRLAEANL RLVVSIAKRY VGRGMLFLDL IQEGNMGLIK AVEKFDFNKG 190 200 210 220 230 240 FKFSTYATWW IRQAITRAIA DQARTIRIPV HMVETINKLI RVQRQLLQDL GRDPAPEEIG 250 260 270 280 290 300 EEMDLPAEKV REILKIAQEP VSLETPIGEE DDSHLGDFIE DQEAQSPSDH AAYELLKEQL 310 320 330 340 350 360 EDVLDTLTDR EENVLRLRFG LDDGRTRTLE EVGKVFGVTR ERIRQIEAKA LRKLRHPSRS KRLKDFMD

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The Staphylococcus aureus chromosomal gene plaC, identified by mutations amplifying plasmid pT181, encodes a sigma factor." Basheer R., Iordanescu S. Nucleic Acids Res. 19:4921-4924(1991) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"The Staphylococcus aureus NCTC8325 genome." Gillaspy A.F., Worrell V., Orvis J., Roe B.A., Dyer D.W., Iandolo J.J. Submitted (JAN-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: NCTC 8325.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

M63177 Genomic DNA. Translation: AAB59090.1.
CP000253 Genomic DNA. Translation: ABD30737.1.

PIR

S34442.

RefSeq

YP_500173.1. NC_007795.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
4G6D	X-ray	2.00	A	297-368	[»]
4G94	X-ray	2.00	A	297-357	[»]

ProteinModelPortal

P0A0J0.

SMR

P0A0J0. Positions 124-368.

ModBase

Search...

Protein-protein interaction databases

STRING

93061.SAOUHSC_01662.

Proteomic databases

PRIDE

P0A0J0.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

ABD30737; ABD30737; SAOUHSC_01662.

GeneID

3920074.

KEGG

sao:SAOUHSC_01662.

PATRIC

19580705. VBIStaAur99865_1512.

Phylogenomic databases

eggNOG

COG0568.

HOGENOM

HOG000270273.

KO

K03086.

OMA

AERMSSF.

ProtClustDB

PRK09210.

Enzyme and pathway databases

BioCyc

SAUR93061:GIWJ-1587-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.
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

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_STAA8

Accession

Primary (citable) accession number: P0A0J0
Secondary accession number(s): P26766, Q2FY12

Entry history

Integrated into UniProtKB/Swiss-Prot:	March 1, 2005
Last sequence update:	March 1, 2005
Last modified:	May 1, 2013
This is version 62 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program