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Protein

DNA-directed RNA polymerase subunit alpha

Gene

rpoA

Organism
Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
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.UniRule annotation1 Publication

Catalytic activityi

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

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionNucleotidyltransferase, Transferase
Biological processTranscription

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-directed RNA polymerase subunit alphaUniRule annotation (EC:2.7.7.6UniRule annotation)
Short name:
RNAP subunit alphaUniRule annotation
Alternative name(s):
RNA polymerase subunit alphaUniRule annotation
Transcriptase subunit alphaUniRule annotation
Gene namesi
Name:rpoAUniRule annotation
Ordered Locus Names:MSMEG_1524, MSMEI_1488
OrganismiMycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
Taxonomic identifieri246196 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacterium
Proteomesi
  • UP000006158 Componenti: Chromosome
  • UP000000757 Componenti: Chromosome

Subcellular locationi

Keywords - Cellular componenti

DNA-directed RNA polymerase

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002968351 – 350DNA-directed RNA polymerase subunit alphaAdd BLAST350

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.UniRule annotation1 Publication

Protein-protein interaction databases

IntActiA0QSL8. 2 interactors.
STRINGi246196.MSMEG_1524.

Structurei

Secondary structure

1350
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi8 – 10Combined sources3
Beta strandi14 – 26Combined sources13
Helixi31 – 45Combined sources15
Beta strandi48 – 58Combined sources11
Helixi73 – 81Combined sources9
Beta strandi85 – 87Combined sources3
Beta strandi93 – 106Combined sources14
Helixi107 – 109Combined sources3
Beta strandi116 – 119Combined sources4
Beta strandi124 – 128Combined sources5
Beta strandi133 – 143Combined sources11
Beta strandi145 – 147Combined sources3
Turni152 – 154Combined sources3
Beta strandi166 – 168Combined sources3
Beta strandi171 – 180Combined sources10
Beta strandi190 – 198Combined sources9
Beta strandi200 – 202Combined sources3
Helixi204 – 218Combined sources15
Helixi252 – 254Combined sources3
Helixi258 – 267Combined sources10
Helixi272 – 277Combined sources6
Helixi280 – 284Combined sources5
Helixi291 – 302Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5TW1X-ray2.76A/B/T1-350[»]
ProteinModelPortaliA0QSL8.
SMRiA0QSL8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 226Alpha N-terminal domain (alpha-NTD)UniRule annotationAdd BLAST226
Regioni241 – 350Alpha C-terminal domain (alpha-CTD)UniRule annotationAdd BLAST110

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.UniRule annotation

Sequence similaritiesi

Belongs to the RNA polymerase alpha chain family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105CTF. Bacteria.
COG0202. LUCA.
HOGENOMiHOG000218480.
KOiK03040.
OMAiLMKFRNF.
OrthoDBiPOG091H001Z.

Family and domain databases

HAMAPiMF_00059. RNApol_bact_RpoA. 1 hit.
InterProiView protein in InterPro
IPR011262. 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.
PfamiView protein in Pfam
PF01000. RNA_pol_A_bac. 1 hit.
PF03118. RNA_pol_A_CTD. 1 hit.
PF01193. RNA_pol_L. 1 hit.
ProDomiView protein in ProDom or Entries sharing at least one domain
PD001179. RNAP_asu_C. 1 hit.
SMARTiView protein in SMART
SM00662. RPOLD. 1 hit.
SUPFAMiSSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
TIGRFAMsiTIGR02027. rpoA. 1 hit.

Sequencei

Sequence statusi: Complete.

A0QSL8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLISQRPTLS EETVAENRSR FVIEPLEPGF GYTLGNSLRR TLLSSIPGAA
60 70 80 90 100
VTSIRIDGVL HEFTTVPGVK EDVTDIILNL KGLVVSSDDD EPVTMYLRKQ
110 120 130 140 150
GPGVVTAGDI VPPAGVTVHN PDMHIATLND KGKLEVELVV ERGRGYVPAV
160 170 180 190 200
QNKASGAEIG RIPVDSIYSP VLKVTYKVEA TRVEQRTDFD KLIIDVETKN
210 220 230 240 250
SISPRDALAS AGGTLVELFG LARELNADSE HIEIGPSPAE ADHIASFALP
260 270 280 290 300
IDDLDLTVRS YNCLKREGVH TVGELVARTE SDLLDIRNFG QKSIDEVKIK
310 320 330 340 350
LHQLGLSLKD SPATFDPSEV AGYDAATGTW TSDAGYDLDD NQDYAETEQL
Length:350
Mass (Da):37,920
Last modified:January 9, 2007 - v1
Checksum:i87B23F12DFD648E0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000480 Genomic DNA. Translation: ABK71739.1.
CP001663 Genomic DNA. Translation: AFP37961.1.
RefSeqiWP_003892912.1. NZ_CP009494.1.
YP_885906.1. NC_008596.1.

Genome annotation databases

EnsemblBacteriaiABK71739; ABK71739; MSMEG_1524.
AFP37961; AFP37961; MSMEI_1488.
GeneIDi4537502.
KEGGimsb:LJ00_07615.
msg:MSMEI_1488.
msm:MSMEG_1524.
PATRICi18075505. VBIMycSme59918_1509.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000480 Genomic DNA. Translation: ABK71739.1.
CP001663 Genomic DNA. Translation: AFP37961.1.
RefSeqiWP_003892912.1. NZ_CP009494.1.
YP_885906.1. NC_008596.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5TW1X-ray2.76A/B/T1-350[»]
ProteinModelPortaliA0QSL8.
SMRiA0QSL8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiA0QSL8. 2 interactors.
STRINGi246196.MSMEG_1524.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABK71739; ABK71739; MSMEG_1524.
AFP37961; AFP37961; MSMEI_1488.
GeneIDi4537502.
KEGGimsb:LJ00_07615.
msg:MSMEI_1488.
msm:MSMEG_1524.
PATRICi18075505. VBIMycSme59918_1509.

Phylogenomic databases

eggNOGiENOG4105CTF. Bacteria.
COG0202. LUCA.
HOGENOMiHOG000218480.
KOiK03040.
OMAiLMKFRNF.
OrthoDBiPOG091H001Z.

Family and domain databases

HAMAPiMF_00059. RNApol_bact_RpoA. 1 hit.
InterProiView protein in InterPro
IPR011262. 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.
PfamiView protein in Pfam
PF01000. RNA_pol_A_bac. 1 hit.
PF03118. RNA_pol_A_CTD. 1 hit.
PF01193. RNA_pol_L. 1 hit.
ProDomiView protein in ProDom or Entries sharing at least one domain
PD001179. RNAP_asu_C. 1 hit.
SMARTiView protein in SMART
SM00662. RPOLD. 1 hit.
SUPFAMiSSF55257. SSF55257. 2 hits.
SSF56553. SSF56553. 1 hit.
TIGRFAMsiTIGR02027. rpoA. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiRPOA_MYCS2
AccessioniPrimary (citable) accession number: A0QSL8
Secondary accession number(s): I7G472
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 24, 2007
Last sequence update: January 9, 2007
Last modified: April 12, 2017
This is version 71 of the entry and version 1 of the sequence. See 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

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.