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Q9Z9H6

- RPOA_THETH

UniProt

Q9Z9H6 - RPOA_THETH

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Protein

DNA-directed RNA polymerase subunit alpha

Gene

rpoA

Organism
Thermus thermophilus
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

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
OrganismiThermus thermophilus
Taxonomic identifieri274 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus

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_0000175409Add
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.

Protein-protein interaction databases

DIPiDIP-60256N.

Structurei

Secondary structure

1
315
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi3 – 53
Beta strandi10 – 167
Turni17 – 193
Beta strandi20 – 289
Helixi32 – 4615
Beta strandi48 – 6013
Beta strandi71 – 744
Helixi75 – 839
Beta strandi87 – 893
Beta strandi95 – 10612
Beta strandi108 – 1103
Helixi111 – 1133
Beta strandi118 – 1236
Beta strandi128 – 1325
Beta strandi137 – 15115
Helixi153 – 1564
Beta strandi173 – 1819
Beta strandi193 – 2019
Beta strandi203 – 2053
Helixi207 – 22317
Helixi256 – 2594
Helixi263 – 2719
Helixi277 – 2826
Helixi285 – 2884
Helixi296 – 30914

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1DOQNMR-A247-315[»]
1IW7X-ray2.60A/B/K/L1-315[»]
1SMYX-ray2.70A/B/K/L1-315[»]
2BE5X-ray2.40A/B/K/L1-315[»]
2PPBX-ray3.00A/B/K/L1-315[»]
3EQLX-ray2.70A/B/K/L1-315[»]
4Q4ZX-ray2.90A/B1-315[»]
4Q5SX-ray3.00A/B1-315[»]
ProteinModelPortaliQ9Z9H6.
SMRiQ9Z9H6. Positions 1-229, 262-315.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9Z9H6.

Family & Domainsi

Region

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

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.

Q9Z9H6-1 [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:May 1, 1999 - v1
Checksum:iF79D93B57526A1CB
GO

Cross-referencesi

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1DOQ NMR - A 247-315 [» ]
1IW7 X-ray 2.60 A/B/K/L 1-315 [» ]
1SMY X-ray 2.70 A/B/K/L 1-315 [» ]
2BE5 X-ray 2.40 A/B/K/L 1-315 [» ]
2PPB X-ray 3.00 A/B/K/L 1-315 [» ]
3EQL X-ray 2.70 A/B/K/L 1-315 [» ]
4Q4Z X-ray 2.90 A/B 1-315 [» ]
4Q5S X-ray 3.00 A/B 1-315 [» ]
ProteinModelPortali Q9Z9H6.
SMRi Q9Z9H6. Positions 1-229, 262-315.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

DIPi DIP-60256N.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Miscellaneous databases

EvolutionaryTracei Q9Z9H6.

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

  1. "The structure and the characteristic DNA binding property of the C-terminal domain of the RNA polymerase alpha subunit from Thermus thermophilus."
    Wada T., Yamazaki T., Kyogoku Y.
    J. Biol. Chem. 275:16057-16063(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 247-315.
  2. "Crystal structure of a bacterial RNA polymerase holoenzyme at 2.6 A resolution."
    Vassylyev D.G., Sekine S., Laptenko O., Lee J., Vassylyeva M.N., Borukhov S., Yokoyama S.
    Nature 417:712-719(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS).

Entry informationi

Entry nameiRPOA_THETH
AccessioniPrimary (citable) accession number: Q9Z9H6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: May 1, 1999
Last modified: October 29, 2014
This is version 95 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Caution

The sequence shown here has been extracted from PDB entry 1IW7.Curated

Keywords - Technical termi

3D-structure

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