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Protein

DNA-directed RNA polymerase subunit alpha

Gene

rpoA

Organism
Thermus thermophilus
Status
Reviewed-Annotation score: 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

GO - Biological processi

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)DescriptionActionsGraphical viewLength
ChainiPRO_00001754091 – 315DNA-directed RNA polymerase subunit alphaAdd BLAST315

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.
STRINGi262724.TTC1300.

Structurei

Secondary structure

1315
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Turni4 – 6Combined sources3
Beta strandi11 – 15Combined sources5
Beta strandi17 – 28Combined sources12
Helixi33 – 46Combined sources14
Beta strandi50 – 60Combined sources11
Beta strandi71 – 73Combined sources3
Helixi75 – 83Combined sources9
Beta strandi87 – 91Combined sources5
Beta strandi95 – 102Combined sources8
Beta strandi108 – 110Combined sources3
Helixi111 – 113Combined sources3
Beta strandi120 – 123Combined sources4
Beta strandi128 – 132Combined sources5
Beta strandi139 – 147Combined sources9
Beta strandi149 – 151Combined sources3
Helixi153 – 156Combined sources4
Beta strandi160 – 163Combined sources4
Beta strandi174 – 183Combined sources10
Beta strandi193 – 201Combined sources9
Beta strandi203 – 205Combined sources3
Helixi207 – 223Combined sources17
Helixi256 – 259Combined sources4
Helixi263 – 271Combined sources9
Helixi277 – 282Combined sources6
Helixi285 – 288Combined sources4
Helixi296 – 309Combined sources14

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9Z9H6.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 229Alpha N-terminal domain (alpha-NTD)Add BLAST229
Regioni247 – 315Alpha C-terminal domain (alpha-CTD)Add BLAST69

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

eggNOGiENOG4105CTF. Bacteria.
COG0202. LUCA.

Family and domain databases

Gene3Di2.170.120.12. 1 hit.
HAMAPiMF_00059. RNApol_bact_RpoA. 1 hit.
InterProiIPR011262. DNA-dir_RNA_pol_insert.
IPR011263. DNA-dir_RNA_pol_RpoA/D/Rpb3.
IPR011773. DNA-dir_RpoA.
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]
SMARTiSM00662. 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:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-60256N.
STRINGi262724.TTC1300.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

eggNOGiENOG4105CTF. Bacteria.
COG0202. LUCA.

Miscellaneous databases

EvolutionaryTraceiQ9Z9H6.

Family and domain databases

Gene3Di2.170.120.12. 1 hit.
HAMAPiMF_00059. RNApol_bact_RpoA. 1 hit.
InterProiIPR011262. DNA-dir_RNA_pol_insert.
IPR011263. DNA-dir_RNA_pol_RpoA/D/Rpb3.
IPR011773. DNA-dir_RpoA.
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]
SMARTiSM00662. RPOLD. 1 hit.
[Graphical view]
SUPFAMiSSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
TIGRFAMsiTIGR02027. rpoA. 1 hit.
ProtoNetiSearch...

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: November 30, 2016
This is version 105 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.