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Q5SHR6

- RPOA_THET8

UniProt

Q5SHR6 - RPOA_THET8

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Protein

DNA-directed RNA polymerase subunit alpha

Gene

rpoA

Organism
Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli

Functioni

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

Catalytic activityi

Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1).

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-HAMAP
  2. DNA-directed RNA polymerase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. DNA repair Source: InterPro
  2. transcription, DNA-templated Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Nucleotidyltransferase, Transferase

Keywords - Biological processi

Transcription

Enzyme and pathway databases

BioCyciTTHE300852:GH8R-1703-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase subunit alpha (EC:2.7.7.6)
Short name:
RNAP subunit alpha
Alternative name(s):
RNA polymerase subunit alpha
Transcriptase subunit alpha
Gene namesi
Name:rpoA
Ordered Locus Names:TTHA1664
OrganismiThermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)
Taxonomic identifieri300852 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus
ProteomesiUP000000532: Chromosome

Subcellular locationi

Keywords - Cellular componenti

DNA-directed RNA polymerase

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 315315DNA-directed RNA polymerase subunit alphaPRO_0000175408Add
BLAST

Interactioni

Subunit structurei

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).By similarity

Protein-protein interaction databases

DIPiDIP-47009N.
IntActiQ5SHR6. 3 interactions.
STRINGi300852.TTHA1664.

Structurei

Secondary structure

1
315
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Turni4 – 63Combined sources
Beta strandi10 – 167Combined sources
Turni17 – 193Combined sources
Beta strandi20 – 289Combined sources
Helixi33 – 4614Combined sources
Beta strandi49 – 6012Combined sources
Beta strandi71 – 744Combined sources
Helixi75 – 839Combined sources
Beta strandi87 – 893Combined sources
Beta strandi91 – 933Combined sources
Beta strandi95 – 984Combined sources
Beta strandi99 – 1068Combined sources
Beta strandi108 – 1103Combined sources
Helixi111 – 1133Combined sources
Beta strandi120 – 1234Combined sources
Beta strandi128 – 1325Combined sources
Beta strandi137 – 15115Combined sources
Helixi153 – 1564Combined sources
Beta strandi160 – 1634Combined sources
Beta strandi174 – 18310Combined sources
Beta strandi187 – 1893Combined sources
Beta strandi193 – 2019Combined sources
Beta strandi203 – 2053Combined sources
Helixi207 – 22317Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
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[»]
3WODX-ray3.60A/B1-315[»]
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[»]
4MQ9X-ray3.35A/B1-314[»]
4OINX-ray2.80A/B1-315[»]
4OIOX-ray3.10A/B1-315[»]
4OIPX-ray3.40A/B1-315[»]
4OIQX-ray3.62A/B1-315[»]
4OIRX-ray3.10A/B1-305[»]
ProteinModelPortaliQ5SHR6.
SMRiQ5SHR6. Positions 1-229, 262-315.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ5SHR6.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 229229Alpha N-terminal domain (alpha-NTD)By similarityAdd
BLAST
Regioni247 – 31569Alpha C-terminal domain (alpha-CTD)By similarityAdd
BLAST

Domaini

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

Sequence similaritiesi

Belongs to the RNA polymerase alpha chain family.Curated

Phylogenomic databases

eggNOGiCOG0202.
HOGENOMiHOG000218480.
KOiK03040.
OMAiRRANIDT.
OrthoDBiEOG68WR84.
PhylomeDBiQ5SHR6.

Family and domain databases

Gene3Di2.170.120.12. 1 hit.
HAMAPiMF_00059. RNApol_bact_RpoA.
InterProiIPR011262. 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]
PfamiPF01000. RNA_pol_A_bac. 1 hit.
PF03118. RNA_pol_A_CTD. 1 hit.
PF01193. RNA_pol_L. 1 hit.
[Graphical view]
ProDomiPD001179. RNAP_asu_C. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SMARTiSM00278. HhH1. 1 hit.
SM00662. RPOLD. 1 hit.
[Graphical view]
SUPFAMiSSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
TIGRFAMsiTIGR02027. rpoA. 1 hit.

Sequencei

Sequence statusi: Complete.

Q5SHR6-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MLDSKLKAPV FTVRTQGREY GEFVLEPLER GFGVTLGNPL RRILLSSIPG
60 70 80 90 100
TAVTSVYIED VLHEFSTIPG VKEDVVEIIL NLKELVVRFL NPSLQTVTLL
110 120 130 140 150
LKAEGPKEVK ARDFLPVADV EIMNPDLHIA TLEEGGRLNM EVRVDRGVGY
160 170 180 190 200
VPAEKHGIKD RINAIPVDAV FSPVRRVAFQ VEDTRLGQRT DLDKLTLRIW
210 220 230 240 250
TDGSVTPLEA LNQAVEILRE HLTYFSNPQA AAVAAPEEAK EPEAPPEQEE
260 270 280 290 300
ELDLPLEELG LSTRVLHSLK EEGIESVRAL LALNLKDLKN IPGIGERSLE
310
EIKEALEKKG FTLKE
Length:315
Mass (Da):35,013
Last modified:December 21, 2004 - v1
Checksum:iF79D93B57526A1CB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB024328 Genomic DNA. Translation: BAA75549.1.
AP008226 Genomic DNA. Translation: BAD71487.1.
RefSeqiWP_011173698.1. NC_006461.1.
YP_144930.1. NC_006461.1.

Genome annotation databases

EnsemblBacteriaiBAD71487; BAD71487; BAD71487.
GeneIDi3169128.
KEGGittj:TTHA1664.
PATRICi23958283. VBITheThe93045_1634.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB024328 Genomic DNA. Translation: BAA75549.1 .
AP008226 Genomic DNA. Translation: BAD71487.1 .
RefSeqi WP_011173698.1. NC_006461.1.
YP_144930.1. NC_006461.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1ZYR X-ray 3.00 A/B/K/L 1-315 [» ]
2A68 X-ray 2.50 A/B/K/L 1-315 [» ]
2A69 X-ray 2.50 A/B/K/L 1-315 [» ]
2A6E X-ray 2.80 A/B/K/L 1-315 [» ]
2A6H X-ray 2.40 A/B/K/L 1-315 [» ]
2BE5 X-ray 2.40 A/B/K/L 1-315 [» ]
2CW0 X-ray 3.30 A/B/K/L 1-315 [» ]
2O5I X-ray 2.50 A/B/K/L 1-315 [» ]
2O5J X-ray 3.00 A/B/K/L 1-315 [» ]
3AOH X-ray 4.10 A/B/F/G/K/L 1-315 [» ]
3AOI X-ray 4.30 A/B/F/G/K/L 1-315 [» ]
3DXJ X-ray 3.00 A/B/K/L 1-315 [» ]
3WOD X-ray 3.60 A/B 1-315 [» ]
4G7H X-ray 2.90 A/B/K/L 1-315 [» ]
4G7O X-ray 2.99 A/B/K/L 1-315 [» ]
4G7Z X-ray 3.82 A/B/K/L 1-315 [» ]
4GZY X-ray 3.51 A/B 1-315 [» ]
4GZZ X-ray 4.29 A/B 1-315 [» ]
4MQ9 X-ray 3.35 A/B 1-314 [» ]
4OIN X-ray 2.80 A/B 1-315 [» ]
4OIO X-ray 3.10 A/B 1-315 [» ]
4OIP X-ray 3.40 A/B 1-315 [» ]
4OIQ X-ray 3.62 A/B 1-315 [» ]
4OIR X-ray 3.10 A/B 1-305 [» ]
ProteinModelPortali Q5SHR6.
SMRi Q5SHR6. Positions 1-229, 262-315.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-47009N.
IntActi Q5SHR6. 3 interactions.
STRINGi 300852.TTHA1664.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD71487 ; BAD71487 ; BAD71487 .
GeneIDi 3169128.
KEGGi ttj:TTHA1664.
PATRICi 23958283. VBITheThe93045_1634.

Phylogenomic databases

eggNOGi COG0202.
HOGENOMi HOG000218480.
KOi K03040.
OMAi RRANIDT.
OrthoDBi EOG68WR84.
PhylomeDBi Q5SHR6.

Enzyme and pathway databases

BioCyci TTHE300852:GH8R-1703-MONOMER.

Miscellaneous databases

EvolutionaryTracei Q5SHR6.

Family and domain databases

Gene3Di 2.170.120.12. 1 hit.
HAMAPi MF_00059. RNApol_bact_RpoA.
InterProi IPR011262. 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 ]
Pfami PF01000. RNA_pol_A_bac. 1 hit.
PF03118. RNA_pol_A_CTD. 1 hit.
PF01193. RNA_pol_L. 1 hit.
[Graphical view ]
ProDomi PD001179. RNAP_asu_C. 1 hit.
[Graphical view ] [Entries sharing at least one domain ]
SMARTi SM00278. HhH1. 1 hit.
SM00662. RPOLD. 1 hit.
[Graphical view ]
SUPFAMi SSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
TIGRFAMsi TIGR02027. rpoA. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  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.

Entry informationi

Entry nameiRPOA_THET8
AccessioniPrimary (citable) accession number: Q5SHR6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 24, 2005
Last sequence update: December 21, 2004
Last modified: November 26, 2014
This is version 78 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3