DNA-directed RNA polymerase subunit beta - Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

Preferred order of sections

Names and origin

Protein names

Recommended name:
DNA-directed RNA polymerase subunit beta
Short name=RNAP subunit beta
EC=2.7.7.6

Alternative name(s):
RNA polymerase subunit beta
Transcriptase subunit beta

Gene names

Name:	rpoB
Ordered Locus Names:	VC_0328

Organism

Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) [Reference proteome] [HAMAP]

Taxonomic identifier

243277 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Vibrionales › Vibrionaceae › Vibrio ›

Protein attributes

Sequence length	1341 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates By similarity. HAMAP-Rule MF_01321
Catalytic activity	Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1). HAMAP-Rule MF_01321
Subunit structure	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.
Sequence similarities	Belongs to the RNA polymerase beta chain family.
Sequence caution	The sequence AAF93501.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Transcription
Cellular component	DNA-directed RNA polymerase
Molecular function	Nucleotidyltransferase Transferase
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	transcription, DNA-dependent Inferred from electronic annotation. Source: HAMAP
Molecular_function	DNA binding Inferred from electronic annotation. Source: HAMAP DNA-directed RNA polymerase activity Inferred from sequence or structural similarity Ref.1. Source: TIGR ribonucleoside binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 1341

1341

DNA-directed RNA polymerase subunit beta HAMAP-Rule MF_01321

PRO_0000047992

Secondary structure

1

.

1341

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

Q9KV30 [UniParc].

Last modified January 16, 2004. Version 2.
Checksum: 9C6C824A923295A9
Show »

FASTA

1,341

149,455

        10         20         30         40         50         60 
MVYSYTEKKR IRKDFGTRPQ VLDIPYLLSI QLDSFEKFIE QDPEGQYGLE AAFRSVFPIQ 

        70         80         90        100        110        120 
SYNGNSELQY VSYRLGEPVF DVKECQIRGV TYSKPLRVKL RLVIFDKDAP AGTVKDIKEQ 

       130        140        150        160        170        180 
EVYMGEIPLM TENGTFVING TERVIVSQLH RSPGVFFDSD KGKTHSSGKV LYNARIIPYR 

       190        200        210        220        230        240 
GSWLDFEFDP KDNLYVRIDR RRKLPASIIL RALGKTSAEI LDIFFEKVNF EVKDQTLMME 

       250        260        270        280        290        300 
LVPERLRGET ATFDIEADGK VYVEKGRRVT ARHIRQLEKD GVNFIEVPVE YIVGKVSAKD 

       310        320        330        340        350        360 
YVNEATGELI ITANQEISLE ALANLSQAGY KKLEVLFTND LDHGPFMSET LRVDSTTDRI 

       370        380        390        400        410        420 
SALVEIYRMM RPGEPPTKEA AESLFESLFF SAERYDLSTV GRMKFNSSIG REDAEEQGTL 

       430        440        450        460        470        480 
DEVDIIEVMK KLISIRNGKG EVDDIDHLGN RRIRSVGEMA ENQFRVGLVR VERAVKERLS 

       490        500        510        520        530        540 
LGDLDNVMPQ DLINAKPISA AVKEFFGSSQ LSQFMDQNNP LSEVTHKRRI SALGPGGLTR 

       550        560        570        580        590        600 
ERAGFEVRDV HVTHYGRLCP IETPEGPNIG LINSLSAFAR CNEYGFLETP YRRVVNGVVT 

       610        620        630        640        650        660 
DEVDYLSAIE EGQFVIAQAN AKLTEEGGFA DELVTARQKG ESGLHPREHV DYMDVATNQV 

       670        680        690        700        710        720 
VSIAASLIPF LEHDDANRAL MGANMQRQAV PTLRSEKPLV GTGIERNVAV DSGVTAVAKR 

       730        740        750        760        770        780 
GGVIQSVDAS RIVVKVNEEE LIPGEAGIDI YNLTKYTRSN QNTCINQRPC VMPGEPVARG 

       790        800        810        820        830        840 
DVLADGPSTD LGELALGQNM RIAFMPWNGY NFEDSILVSE RVVQDDRFTT IHIQELSCVA 

       850        860        870        880        890        900 
RDTKLGAEEI TADIPNVGEA ALSKLDESGI VYIGAEVKGG DILVGKVTPK GETQLTPEEK 

       910        920        930        940        950        960 
LLRAIFGEKA SDVKDTSLRV PNSVAGTVID VQVFTRDGVE KDKRALEIEQ MQLKEAKKDL 

       970        980        990       1000       1010       1020 
TEEFQILEGG LLARVRSVLL AGGYTEAKLG SIERKKWLEQ TLENEELQNQ LEQLAEQYDE 

      1030       1040       1050       1060       1070       1080 
LKADFDKKFE AKRRKITQGD DLAPGVLKIV KVYLAVKRRI QPGDKMAGRH GNKGVISKIN 

      1090       1100       1110       1120       1130       1140 
PVEDMPYDEN GQPVDIVLNP LGVPSRMNIG QILEVHLGLA AKGIGDKINQ MIKEQQELAK 

      1150       1160       1170       1180       1190       1200 
LREFLQKVYD LGDTRQRVDI SELSDEDVRT LAHNLRAGLP VATPVFDGAP ESSIKAMLEL 

      1210       1220       1230       1240       1250       1260 
ADLPASGQLT LFDGRTGDAF ERPVTVGYMY MLKLNHLVDD KMHARSTGSY SLVTQQPLGG 

      1270       1280       1290       1300       1310       1320 
KAQFGGQRFG EMEVWALEAY GAAYTLQEML TVKSDDVNGR TKMYKNIVDG NHAMEPGMPE 

      1330       1340 
SFNVLLKEIR SLGINIELED E

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References

[1]

"DNA sequence of both chromosomes of the cholera pathogen Vibrio cholerae."
Heidelberg J.F., Eisen J.A., Nelson W.C., Clayton R.A., Gwinn M.L., Dodson R.J., Haft D.H., Hickey E.K., Peterson J.D., Umayam L.A., Gill S.R., Nelson K.E., Read T.D., Tettelin H., Richardson D.L., Ermolaeva M.D., Vamathevan J.J., Bass S.

Fraser C.M.
Nature 406:477-483(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 39315 / El Tor Inaba N16961.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AE003852 Genomic DNA. Translation: AAF93501.1. Different initiation.

PIR

F82336.

RefSeq

NP_229982.1. NC_002505.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3E7H	X-ray	1.70	A/B	228-329	[»]

ProteinModelPortal

Q9KV30.

ModBase

Search...

Protein-protein interaction databases

STRING

243277.VC0328.

Proteomic databases

PRIDE

Q9KV30.

Protocols and materials databases

DNASU

2615094.

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAF93501; AAF93501; VC_0328.

GeneID

2615094.

KEGG

vch:VC0328.

PATRIC

20079713. VBIVibCho83274_0305.

Phylogenomic databases

eggNOG

COG0085.

KO

K03043.

OMA

IGYIYML.

ProtClustDB

PRK00405.

Family and domain databases

Gene3D

2.30.150.10. 1 hit.
2.40.270.10. 2 hits.
2.40.50.150. 2 hits.

HAMAP

MF_01321. RNApol_bact_RpoB.

InterPro

IPR010243. DNA-dir_RNA_pol_bsu.
IPR019462. DNA-dir_RNA_pol_bsu_external_1.
IPR015712. DNA-dir_RNA_pol_su2.
IPR007120. DNA-dir_RNA_pol_su2_6.
IPR007121. RNA_pol_bsu_CS.
IPR007644. RNA_pol_bsu_protrusion.
IPR007642. RNA_pol_Rpb2_2.
IPR007645. RNA_pol_Rpb2_3.
IPR007641. RNA_pol_Rpb2_7.
IPR014724. RNA_pol_RPB2_OB-fold.
[Graphical view]

PANTHER

PTHR20856. PTHR20856. 1 hit.
PTHR20856:SF3. PTHR20856:SF3. 1 hit.

Pfam

PF04563. RNA_pol_Rpb2_1. 1 hit.
PF04561. RNA_pol_Rpb2_2. 2 hits.
PF04565. RNA_pol_Rpb2_3. 1 hit.
PF10385. RNA_pol_Rpb2_45. 1 hit.
PF00562. RNA_pol_Rpb2_6. 1 hit.
PF04560. RNA_pol_Rpb2_7. 1 hit.
[Graphical view]

TIGRFAMs

TIGR02013. rpoB. 1 hit.

PROSITE

PS01166. RNA_POL_BETA. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

Q9KV30.

Entry information

Entry name

RPOB_VIBCH

Accession

Primary (citable) accession number: Q9KV30

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 2, 2001
Last sequence update:	January 16, 2004
Last modified:	May 1, 2013
This is version 80 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families