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Protein

Replicative DNA helicase

Gene

dnaB

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity and contains distinct active sites for ATP binding, DNA binding, and interaction with DnaC protein, primase, and other prepriming proteins.

Catalytic activityi

ATP + H2O = ADP + phosphate.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi231 – 2388ATPCurated

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • DNA binding Source: UniProtKB-KW
  • DNA helicase activity Source: EcoCyc
  • helicase activity Source: EcoCyc
  • identical protein binding Source: IntAct

GO - Biological processi

  • DNA replication Source: EcoCyc
  • DNA replication, synthesis of RNA primer Source: UniProtKB-KW
  • DNA unwinding involved in DNA replication Source: EcoCyc
  • response to ionizing radiation Source: EcoCyc
Complete GO annotation...

Keywords - Molecular functioni

Helicase, Hydrolase

Keywords - Biological processi

DNA replication

Keywords - Ligandi

ATP-binding, DNA-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciEcoCyc:EG10236-MONOMER.
ECOL316407:JW4012-MONOMER.
MetaCyc:EG10236-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Replicative DNA helicase (EC:3.6.4.12)
Gene namesi
Name:dnaB
Synonyms:groP, grpA
Ordered Locus Names:b4052, JW4012
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318 Componenti: Chromosome UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10236. dnaB.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Primosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 471471Replicative DNA helicasePRO_0000102019Add
BLAST

Proteomic databases

PaxDbiP0ACB0.
PRIDEiP0ACB0.

2D gel databases

SWISS-2DPAGEP0ACB0.

Expressioni

Inductioni

Slightly induced by hydroxyurea.1 Publication

Interactioni

Subunit structurei

Homohexamer.

Binary interactionsi

WithEntry#Exp.IntActNotes
itself3EBI-548978,EBI-548978
dnaAP030044EBI-548978,EBI-548951
dnaCP0AEF09EBI-548978,EBI-549012
dnaGP0ABS53EBI-548978,EBI-549259
dnaXP067102EBI-548978,EBI-549140
priCP238625EBI-548978,EBI-1117383
repP099803EBI-548978,EBI-6558011

Protein-protein interaction databases

DIPiDIP-9456N.
IntActiP0ACB0. 38 interactions.
MINTiMINT-584605.
STRINGi511145.b4052.

Structurei

Secondary structure

1
471
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi30 – 4314Combined sources
Helixi45 – 473Combined sources
Helixi48 – 525Combined sources
Helixi57 – 593Combined sources
Beta strandi60 – 623Combined sources
Helixi63 – 7715Combined sources
Helixi84 – 929Combined sources
Turni93 – 964Combined sources
Helixi97 – 1004Combined sources
Helixi102 – 11211Combined sources
Beta strandi115 – 1173Combined sources
Helixi119 – 1279Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1B79X-ray2.30A/B/C/D16-129[»]
1JWENMR-A24-137[»]
ProteinModelPortaliP0ACB0.
SMRiP0ACB0. Positions 25-462.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0ACB0.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini200 – 467268SF4 helicasePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Belongs to the helicase family. DnaB subfamily.Curated
Contains 1 SF4 helicase domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiCOG0305.
HOGENOMiHOG000113196.
InParanoidiP0ACB0.
KOiK02314.
OMAiFIDDKPN.
OrthoDBiEOG6T4RW5.
PhylomeDBiP0ACB0.

Family and domain databases

Gene3Di1.10.860.10. 1 hit.
3.40.50.300. 1 hit.
InterProiIPR003593. AAA+_ATPase.
IPR007692. DNA_helicase_DnaB.
IPR007694. DNA_helicase_DnaB-like_C.
IPR007693. DNA_helicase_DnaB-like_N.
IPR016136. DNA_helicase_N/primase_C.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF00772. DnaB. 1 hit.
PF03796. DnaB_C. 1 hit.
[Graphical view]
SMARTiSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMiSSF48024. SSF48024. 1 hit.
SSF52540. SSF52540. 2 hits.
TIGRFAMsiTIGR00665. DnaB. 1 hit.
PROSITEiPS51199. SF4_HELICASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P0ACB0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAGNKPFNKQ QAEPRERDPQ VAGLKVPPHS IEAEQSVLGG LMLDNERWDD
60 70 80 90 100
VAERVVADDF YTRPHRHIFT EMARLQESGS PIDLITLAES LERQGQLDSV
110 120 130 140 150
GGFAYLAELS KNTPSAANIS AYADIVRERA VVREMISVAN EIAEAGFDPQ
160 170 180 190 200
GRTSEDLLDL AESRVFKIAE SRANKDEGPK NIADVLDATV ARIEQLFQQP
210 220 230 240 250
HDGVTGVNTG YDDLNKKTAG LQPSDLIIVA ARPSMGKTTF AMNLVENAAM
260 270 280 290 300
LQDKPVLIFS LEMPSEQIMM RSLASLSRVD QTKIRTGQLD DEDWARISGT
310 320 330 340 350
MGILLEKRNI YIDDSSGLTP TEVRSRARRI AREHGGIGLI MIDYLQLMRV
360 370 380 390 400
PALSDNRTLE IAEISRSLKA LAKELNVPVV ALSQLNRSLE QRADKRPVNS
410 420 430 440 450
DLRESGSIEQ DADLIMFIYR DEVYHENSDL KGIAEIIIGK QRNGPIGTVR
460 470
LTFNGQWSRF DNYAGPQYDD E
Length:471
Mass (Da):52,390
Last modified:August 13, 1987 - v1
Checksum:i5B5ED3625A7F7DE5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
K01174 Genomic DNA. Translation: AAA23689.1.
L02312 Genomic DNA. Translation: AAA23690.1.
U00006 Genomic DNA. Translation: AAC43146.1.
U00096 Genomic DNA. Translation: AAC77022.1.
AP009048 Genomic DNA. Translation: BAE78054.1.
PIRiC65213. IQECDB.
RefSeqiNP_418476.1. NC_000913.3.

Genome annotation databases

EnsemblBacteriaiAAC77022; AAC77022; b4052.
BAE78054; BAE78054; BAE78054.
GeneIDi948555.
KEGGiecj:Y75_p3939.
eco:b4052.
PATRICi32123643. VBIEscCol129921_4170.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
K01174 Genomic DNA. Translation: AAA23689.1.
L02312 Genomic DNA. Translation: AAA23690.1.
U00006 Genomic DNA. Translation: AAC43146.1.
U00096 Genomic DNA. Translation: AAC77022.1.
AP009048 Genomic DNA. Translation: BAE78054.1.
PIRiC65213. IQECDB.
RefSeqiNP_418476.1. NC_000913.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1B79X-ray2.30A/B/C/D16-129[»]
1JWENMR-A24-137[»]
ProteinModelPortaliP0ACB0.
SMRiP0ACB0. Positions 25-462.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-9456N.
IntActiP0ACB0. 38 interactions.
MINTiMINT-584605.
STRINGi511145.b4052.

2D gel databases

SWISS-2DPAGEP0ACB0.

Proteomic databases

PaxDbiP0ACB0.
PRIDEiP0ACB0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC77022; AAC77022; b4052.
BAE78054; BAE78054; BAE78054.
GeneIDi948555.
KEGGiecj:Y75_p3939.
eco:b4052.
PATRICi32123643. VBIEscCol129921_4170.

Organism-specific databases

EchoBASEiEB0232.
EcoGeneiEG10236. dnaB.

Phylogenomic databases

eggNOGiCOG0305.
HOGENOMiHOG000113196.
InParanoidiP0ACB0.
KOiK02314.
OMAiFIDDKPN.
OrthoDBiEOG6T4RW5.
PhylomeDBiP0ACB0.

Enzyme and pathway databases

BioCyciEcoCyc:EG10236-MONOMER.
ECOL316407:JW4012-MONOMER.
MetaCyc:EG10236-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP0ACB0.
PROiP0ACB0.

Family and domain databases

Gene3Di1.10.860.10. 1 hit.
3.40.50.300. 1 hit.
InterProiIPR003593. AAA+_ATPase.
IPR007692. DNA_helicase_DnaB.
IPR007694. DNA_helicase_DnaB-like_C.
IPR007693. DNA_helicase_DnaB-like_N.
IPR016136. DNA_helicase_N/primase_C.
IPR027417. P-loop_NTPase.
[Graphical view]
PfamiPF00772. DnaB. 1 hit.
PF03796. DnaB_C. 1 hit.
[Graphical view]
SMARTiSM00382. AAA. 1 hit.
[Graphical view]
SUPFAMiSSF48024. SSF48024. 1 hit.
SSF52540. SSF52540. 2 hits.
TIGRFAMsiTIGR00665. DnaB. 1 hit.
PROSITEiPS51199. SF4_HELICASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Nucleotide sequence of dnaB and the primary structure of the dnaB protein from Escherichia coli."
    Nakayama N., Arai N., Bond M.W., Kaziro Y., Arai K.
    J. Biol. Chem. 259:97-101(1984) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Analysis of the Escherichia coli genome. IV. DNA sequence of the region from 89.2 to 92.8 minutes."
    Blattner F.R., Burland V.D., Plunkett G. III, Sofia H.J., Daniels D.L.
    Nucleic Acids Res. 21:5408-5417(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  4. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  5. "E. coli homolog of zeta crystallin."
    Dixon N.E., Lilley P.E.
    Submitted (SEP-1992) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-157.
    Strain: K12.
  6. "Escherichia coli proteome analysis using the gene-protein database."
    VanBogelen R.A., Abshire K.Z., Moldover B., Olson E.R., Neidhardt F.C.
    Electrophoresis 18:1243-1251(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY 2D-GEL.
  7. "Hydroxyurea induces hydroxyl radical-mediated cell death in Escherichia coli."
    Davies B.W., Kohanski M.A., Simmons L.A., Winkler J.A., Collins J.J., Walker G.C.
    Mol. Cell 36:845-860(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION BY HYDROXYUREA.
    Strain: K12 / MC4100 / ATCC 35695 / DSM 6574.
  8. "NMR structure of the N-terminal domain of E. coli DnaB helicase: implications for structure rearrangements in the helicase hexamer."
    Weigelt J., Brown S.E., Miles C.S., Dixon N.E., Otting G.
    Structure 7:681-690(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 24-137.

Entry informationi

Entry nameiDNAB_ECOLI
AccessioniPrimary (citable) accession number: P0ACB0
Secondary accession number(s): P03005, Q2M6Q2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: August 13, 1987
Last modified: June 24, 2015
This is version 90 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, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.