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Protein

DNA-directed RNA polymerase subunit alpha

Gene

rpoA

Organism
Thermus aquaticus
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 aquaticus
Taxonomic identifieri271 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus

Subcellular locationi

Keywords - Cellular componenti

DNA-directed RNA polymerase

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001754051 – 314DNA-directed RNA polymerase subunit alphaAdd BLAST314

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

STRINGi498848.TaqDRAFT_4990.

Structurei

Secondary structure

1314
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi11 – 15Combined sources5
Beta strandi17 – 19Combined sources3
Beta strandi21 – 28Combined sources8
Helixi32 – 47Combined sources16
Beta strandi50 – 58Combined sources9
Beta strandi63 – 65Combined sources3
Beta strandi71 – 74Combined sources4
Helixi75 – 84Combined sources10
Beta strandi90 – 93Combined sources4
Beta strandi99 – 101Combined sources3
Beta strandi105 – 107Combined sources3
Helixi111 – 113Combined sources3
Beta strandi120 – 124Combined sources5
Beta strandi130 – 132Combined sources3
Beta strandi140 – 147Combined sources8
Beta strandi149 – 151Combined sources3
Helixi153 – 156Combined sources4
Beta strandi160 – 163Combined sources4
Beta strandi174 – 176Combined sources3
Beta strandi179 – 182Combined sources4
Beta strandi186 – 188Combined sources3
Beta strandi193 – 197Combined sources5
Beta strandi202 – 205Combined sources4
Helixi207 – 222Combined sources16
Turni223 – 226Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1HQMX-ray3.30A/B1-314[»]
1I6VX-ray3.30A/B1-314[»]
1L9UX-ray4.00A/B/J/K1-314[»]
1L9ZX-ray6.50A/B1-314[»]
1YNJX-ray3.20A/B1-314[»]
1YNNX-ray3.30A/B1-314[»]
2GHOX-ray5.00A/B1-314[»]
4XLNX-ray4.00A/B/G/H1-314[»]
4XLPX-ray4.00A/B/G/H1-314[»]
4XLQX-ray4.60A/B/G/H1-314[»]
4XLRX-ray4.30A/B/G/H1-314[»]
4XLSX-ray4.01A/B/G/H1-314[»]
ProteinModelPortaliQ9KWU8.
SMRiQ9KWU8.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9KWU8.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 229Alpha N-terminal domain (alpha-NTD)Add BLAST229
Regioni246 – 314Alpha 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.

Q9KWU8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLESKLKAPV FTATTQGDHY GEFVLEPLER GFGVTLGNPL RRILLSSIPG
60 70 80 90 100
TAVTSVYIED VLHEFSTIPG VKEDVVEIIL NLKELVVRFL DPKMASTTLI
110 120 130 140 150
LRAEGPKEVR AGDFTPSADV EIMNPDLHIA TLEEGGKLYM EVRVDRGVGY
160 170 180 190 200
VPAERHGIKD RINAIPVDAI FSPVRRVAFQ VEDTRLGQRT DLDKLTLRIW
210 220 230 240 250
TDGSVTPLEA LNQAVAILKE HLNYFANPEA SLLPTPEVSK GEKRESAEED
260 270 280 290 300
LDLPLEELGL STRVLHSLKE EGIESVRALL ALNLKDLRNI PGIGERSLEE
310
IRQALAKKGF TLKE
Length:314
Mass (Da):34,787
Last modified:October 1, 2000 - v1
Checksum:iF2D0AB716619A3F0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y19222 Genomic DNA. Translation: CAB65464.2.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Y19222 Genomic DNA. Translation: CAB65464.2.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1HQMX-ray3.30A/B1-314[»]
1I6VX-ray3.30A/B1-314[»]
1L9UX-ray4.00A/B/J/K1-314[»]
1L9ZX-ray6.50A/B1-314[»]
1YNJX-ray3.20A/B1-314[»]
1YNNX-ray3.30A/B1-314[»]
2GHOX-ray5.00A/B1-314[»]
4XLNX-ray4.00A/B/G/H1-314[»]
4XLPX-ray4.00A/B/G/H1-314[»]
4XLQX-ray4.60A/B/G/H1-314[»]
4XLRX-ray4.30A/B/G/H1-314[»]
4XLSX-ray4.01A/B/G/H1-314[»]
ProteinModelPortaliQ9KWU8.
SMRiQ9KWU8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi498848.TaqDRAFT_4990.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Phylogenomic databases

eggNOGiENOG4105CTF. Bacteria.
COG0202. LUCA.

Miscellaneous databases

EvolutionaryTraceiQ9KWU8.

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_THEAQ
AccessioniPrimary (citable) accession number: Q9KWU8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 11, 2001
Last sequence update: October 1, 2000
Last modified: November 2, 2016
This is version 100 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

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.