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Q5SHR6 (RPOA_THET8) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 73. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA-directed RNA polymerase subunit alpha

Short name=RNAP subunit alpha
EC=2.7.7.6
Alternative name(s):
RNA polymerase subunit alpha
Transcriptase subunit alpha
Gene names
Name:rpoA
Ordered Locus Names:TTHA1664
OrganismThermus thermophilus (strain HB8 / ATCC 27634 / DSM 579) [Reference proteome] [HAMAP]
Taxonomic identifier300852 [NCBI]
Taxonomic lineageBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus

Protein attributes

Sequence length315 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. HAMAP-Rule MF_00059

Catalytic activity

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). HAMAP-Rule MF_00059

Subunit structure

Homodimer. The RNAP catalytic core consists of 2 alpha, 1 beta, 1 beta' and 1 omega subunit. When a sigma factor is associated with the core the holoenzyme is formed, which can initiate transcription By similarity.

Domain

The N-terminal domain is essential for RNAP assembly and basal transcription, whereas the C-terminal domain is involved in interaction with transcriptional regulators and with upstream promoter elements By similarity. HAMAP-Rule MF_00059

Sequence similarities

Belongs to the RNA polymerase alpha chain family.

Ontologies

Keywords
   Biological processTranscription
   Cellular componentDNA-directed RNA polymerase
   Molecular functionNucleotidyltransferase
Transferase
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processDNA repair

Inferred from electronic annotation. Source: InterPro

transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-HAMAP

   Molecular_functionDNA binding

Inferred from electronic annotation. Source: UniProtKB-HAMAP

DNA-directed RNA polymerase activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 315315DNA-directed RNA polymerase subunit alpha HAMAP-Rule MF_00059
PRO_0000175408

Regions

Region1 – 229229Alpha N-terminal domain (alpha-NTD) By similarity
Region247 – 31569Alpha C-terminal domain (alpha-CTD) By similarity

Secondary structure

.......................................... 315
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Q5SHR6 [UniParc].

Last modified December 21, 2004. Version 1.
Checksum: F79D93B57526A1CB

FASTA31535,013
        10         20         30         40         50         60 
MLDSKLKAPV FTVRTQGREY GEFVLEPLER GFGVTLGNPL RRILLSSIPG TAVTSVYIED 

        70         80         90        100        110        120 
VLHEFSTIPG VKEDVVEIIL NLKELVVRFL NPSLQTVTLL LKAEGPKEVK ARDFLPVADV 

       130        140        150        160        170        180 
EIMNPDLHIA TLEEGGRLNM EVRVDRGVGY VPAEKHGIKD RINAIPVDAV FSPVRRVAFQ 

       190        200        210        220        230        240 
VEDTRLGQRT DLDKLTLRIW TDGSVTPLEA LNQAVEILRE HLTYFSNPQA AAVAAPEEAK 

       250        260        270        280        290        300 
EPEAPPEQEE ELDLPLEELG LSTRVLHSLK EEGIESVRAL LALNLKDLKN IPGIGERSLE 

       310 
EIKEALEKKG FTLKE 

« Hide

References

« Hide 'large scale' references
[1]"Cloning of the RNA polymerase alpha subunit gene from Thermus thermophilus HB8 and characterization of the protein."
Wada T., Yamazaki T., Kuramitsu S., Kyogoku Y.
J. Biochem. 125:143-150(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]"Complete genome sequence of Thermus thermophilus HB8."
Masui R., Kurokawa K., Nakagawa N., Tokunaga F., Koyama Y., Shibata T., Oshima T., Yokoyama S., Yasunaga T., Kuramitsu S.
Submitted (NOV-2004) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: HB8 / ATCC 27634 / DSM 579.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AB024328 Genomic DNA. Translation: BAA75549.1.
AP008226 Genomic DNA. Translation: BAD71487.1.
RefSeqYP_144930.1. NC_006461.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1ZYRX-ray3.00A/B/K/L1-315[»]
2A68X-ray2.50A/B/K/L1-315[»]
2A69X-ray2.50A/B/K/L1-315[»]
2A6EX-ray2.80A/B/K/L1-315[»]
2A6HX-ray2.40A/B/K/L1-315[»]
2BE5X-ray2.40A/B/K/L1-315[»]
2CW0X-ray3.30A/B/K/L1-315[»]
2O5IX-ray2.50A/B/K/L1-315[»]
2O5JX-ray3.00A/B/K/L1-315[»]
3AOHX-ray4.10A/B/F/G/K/L1-315[»]
3AOIX-ray4.30A/B/F/G/K/L1-315[»]
3DXJX-ray3.00A/B/K/L1-315[»]
4G7HX-ray2.90A/B/K/L1-315[»]
4G7OX-ray2.99A/B/K/L1-315[»]
4G7ZX-ray3.82A/B/K/L1-315[»]
4GZYX-ray3.51A/B1-315[»]
4GZZX-ray4.29A/B1-315[»]
ProteinModelPortalQ5SHR6.
SMRQ5SHR6. Positions 1-229, 262-315.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-47009N.
IntActQ5SHR6. 3 interactions.
STRING300852.TTHA1664.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaBAD71487; BAD71487; BAD71487.
GeneID3169128.
KEGGttj:TTHA1664.
PATRIC23958283. VBITheThe93045_1634.

Phylogenomic databases

eggNOGCOG0202.
HOGENOMHOG000218480.
KOK03040.
OMAGKKSYDE.
OrthoDBEOG68WR84.
ProtClustDBPRK05182.

Enzyme and pathway databases

BioCycTTHE300852:GH8R-1703-MONOMER.

Family and domain databases

Gene3D2.170.120.12. 1 hit.
HAMAPMF_00059. RNApol_bact_RpoA.
InterProIPR011262. DNA-dir_RNA_pol_insert.
IPR011263. DNA-dir_RNA_pol_RpoA/D/Rpb3.
IPR011773. DNA-dir_RpoA.
IPR003583. Hlx-hairpin-Hlx_DNA-bd_motif.
IPR009025. RBP11-like_dimer.
IPR011260. RNAP_asu_C.
[Graphical view]
PfamPF01000. RNA_pol_A_bac. 1 hit.
PF03118. RNA_pol_A_CTD. 1 hit.
PF01193. RNA_pol_L. 1 hit.
[Graphical view]
ProDomPD001179. RNAP_asu_C. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTSM00278. HhH1. 1 hit.
SM00662. RPOLD. 1 hit.
[Graphical view]
SUPFAMSSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
TIGRFAMsTIGR02027. rpoA. 1 hit.
ProtoNetSearch...

Other

EvolutionaryTraceQ5SHR6.

Entry information

Entry nameRPOA_THET8
AccessionPrimary (citable) accession number: Q5SHR6
Entry history
Integrated into UniProtKB/Swiss-Prot: May 24, 2005
Last sequence update: December 21, 2004
Last modified: February 19, 2014
This is version 73 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references