DNA helicase II - Escherichia coli (strain K12)

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P03018 (UVRD_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 29, 2013. Version 132. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
DNA helicase II
EC=3.6.4.12

Gene names

Name:	uvrD
Synonyms:	mutU, pdeB, rad, recL
Ordered Locus Names:	b3813, JW3786

Organism

Escherichia coli (strain K12) [Reference proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia ›

Protein attributes

Sequence length	720 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function

Has both ATPase and helicase activities. Unwinds DNA duplexes with 3' to 5' polarity with respect to the bound strand and initiates unwinding most effectively when a single-stranded region is present. Involved in the post-incision events of nucleotide excision repair and methyl-directed mismatch repair.

Catalytic activity

ATP + H₂O = ADP + phosphate.

Sequence similarities

Belongs to the helicase family. UvrD subfamily.

Contains 1 uvrD-like helicase ATP-binding domain.

Contains 1 uvrD-like helicase C-terminal domain.

Ontologies

Keywords
Biological process	DNA damage DNA repair DNA replication SOS response
Ligand	ATP-binding DNA-binding Nucleotide-binding
Molecular function	Helicase Hydrolase
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	DNA repair Inferred from electronic annotation. Source: UniProtKB-KW DNA unwinding involved in replication Inferred from electronic annotation. Source: InterPro SOS response Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	cytoplasm Inferred from electronic annotation. Source: InterPro
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW ATP-dependent DNA helicase activity Inferred from electronic annotation. Source: InterPro DNA binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
lpdA	P0A9P0	2	EBI-559573,EBI-542856
mutL	P23367	7	EBI-559573,EBI-554913

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 720

720

DNA helicase II

PRO_0000102072

Regions

Domain

8 – 286

279

UvrD-like helicase ATP-binding

Domain

287 – 564

278

UvrD-like helicase C-terminal

Nucleotide binding

32 – 37

ATP By similarity

Sites

Binding site

284

ATP By similarity

Natural variations

Natural variant

G → D in uvrD252, which is UV sensitive.

Experimental info

Sequence conflict

224

D → N in CAA25321. Ref.1

Sequence conflict

291 – 293

SAA → NAR in CAA25321. Ref.1

Sequence conflict

330

A → T in CAA25321. Ref.1

Sequence conflict

540

L → V in CAA25321. Ref.1

Secondary structure

720

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P03018 [UniParc].

Last modified April 1, 1988. Version 1.
Checksum: FA68E7267C77B49A
Show »

FASTA

720

81,990

        10         20         30         40         50         60 
MDVSYLLDSL NDKQREAVAA PRSNLLVLAG AGSGKTRVLV HRIAWLMSVE NCSPYSIMAV 

        70         80         90        100        110        120 
TFTNKAAAEM RHRIGQLMGT SQGGMWVGTF HGLAHRLLRA HHMDANLPQD FQILDSEDQL 

       130        140        150        160        170        180 
RLLKRLIKAM NLDEKQWPPR QAMWYINSQK DEGLRPHHIQ SYGNPVEQTW QKVYQAYQEA 

       190        200        210        220        230        240 
CDRAGLVDFA ELLLRAHELW LNKPHILQHY RERFTNILVD EFQDTNNIQY AWIRLLAGDT 

       250        260        270        280        290        300 
GKVMIVGDDD QSIYGWRGAQ VENIQRFLND FPGAETIRLE QNYRSTSNIL SAANALIENN 

       310        320        330        340        350        360 
NGRLGKKLWT DGADGEPISL YCAFNELDEA RFVVNRIKTW QDNGGALAEC AILYRSNAQS 

       370        380        390        400        410        420 
RVLEEALLQA SMPYRIYGGM RFFERQEIKD ALSYLRLIAN RNDDAAFERV VNTPTRGIGD 

       430        440        450        460        470        480 
RTLDVVRQTS RDRQLTLWQA CRELLQEKAL AGRAASALQR FMELIDALAQ ETADMPLHVQ 

       490        500        510        520        530        540 
TDRVIKDSGL RTMYEQEKGE KGQTRIENLE ELVTATRQFS YNEEDEDLMP LQAFLSHAAL 

       550        560        570        580        590        600 
EAGEGQADTW QDAVQLMTLH SAKGLEFPQV FIVGMEEGMF PSQMSLDEGG RLEEERRLAY 

       610        620        630        640        650        660 
VGVTRAMQKL TLTYAETRRL YGKEVYHRPS RFIGELPEEC VEEVRLRATV SRPVSHQRMG 

       670        680        690        700        710        720 
TPMVENDSGY KLGQRVRHAK FGEGTIVNME GSGEHSRLQV AFQGQGIKWL VAAYARLESV

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The nucleotide sequence of the uvrD gene of E. coli." Finch P.W., Emmerson P.T. Nucleic Acids Res. 12:5789-5799(1984) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Determination of the initiation sites of transcription and translation of the uvrD gene of Escherichia coli." Yamamoto Y., Ogawa T., Shinagawa H., Nakayama T., Matsuo H., Ogawa H. J. Biochem. 99:1579-1590(1986) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PARTIAL PROTEIN SEQUENCE.
[3]	"Analysis of the Escherichia coli genome: DNA sequence of the region from 84.5 to 86.5 minutes." Daniels D.L., Plunkett G. III, Burland V.D., Blattner F.R. Science 257:771-778(1992) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[4]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[5]	"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.
[6]	"Transcription of the uvrD gene of Escherichia coli is controlled by the lexA repressor and by attenuation." Easton A.M., Kushner S.R. Nucleic Acids Res. 11:8625-8640(1983) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-258.
[7]	"Recombination at ColE1 cer requires the Escherichia coli xerC gene product, a member of the lambda integrase family of site-specific recombinases." Colloms S.D., Sykora P., Szatmari G., Sherratt D.J. J. Bacteriol. 172:6973-6980(1990) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-17. Strain: K12.
[8]	"Characterization of DNA helicase II from a uvrD252 mutant of Escherichia coli." Washburn B.K., Kushner S.R. J. Bacteriol. 175:341-350(1993) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANT UVRD252.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X00738 Genomic DNA. Translation: CAA25321.1.
D00069 Genomic DNA. Translation: BAA00048.1.
X04037 Genomic DNA. Translation: CAA27671.1.
M87049 Genomic DNA. Translation: AAA67609.1.
U00096 Genomic DNA. Translation: AAC76816.1.
AP009048 Genomic DNA. Translation: BAE77487.1.
X00225 Genomic DNA. Translation: CAA25043.1.
M38257 Genomic DNA. Translation: AAA24765.1.

PIR

HJECD2. F65185.

RefSeq

NP_418258.1. NC_000913.2.
YP_491628.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2IS1	X-ray	2.90	A/B	1-680	[»]
2IS2	X-ray	3.00	A/B	1-680	[»]
2IS4	X-ray	2.60	A/B	1-680	[»]
2IS6	X-ray	2.20	A/B	1-680	[»]
3LFU	X-ray	1.80	A	1-647	[»]

ProteinModelPortal

P03018.

SMR

P03018. Positions 1-656.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-11103N.

IntAct

P03018. 35 interactions.

MINT

MINT-1223204.

STRING

511145.b3813.

Proteomic databases

PaxDb

P03018.

PRIDE

P03018.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAC76816; AAC76816; b3813.
BAE77487; BAE77487; BAE77487.

GeneID

12934346.
948347.

KEGG

ecj:Y75_p3364.
eco:b3813.

PATRIC

32123127. VBIEscCol129921_3929.

Organism-specific databases

EchoBASE

EB1057.

EcoGene

EG11064. uvrD.

Phylogenomic databases

eggNOG

COG0210.

HOGENOM

HOG000033016.

K03657.

OMA

ASPHSIL.

ProtClustDB

PRK11773.

Enzyme and pathway databases

BioCyc

EcoCyc:EG11064-MONOMER.
ECOL316407:JW3786-MONOMER.
MetaCyc:EG11064-MONOMER.

Gene expression databases

Genevestigator

P03018.

Family and domain databases

Gene3D

1.10.10.160. 1 hit.

InterPro

IPR013986. DExx_box_DNA_helicase_dom.
IPR005753. DNA_helicase_ATP-dep_UvrD.
IPR014017. DNA_helicase_UvrD-like_C.
IPR000212. DNA_helicase_UvrD/REP.
IPR027417. P-loop_NTPase.
IPR014016. UvrD-like_ATP-bd.
[Graphical view]

PANTHER

PTHR11070. PTHR11070. 1 hit.

Pfam

PF00580. UvrD-helicase. 1 hit.
PF13361. UvrD_C. 1 hit.
[Graphical view]

SUPFAM

SSF52540. SSF52540. 1 hit.

TIGRFAMs

TIGR01075. uvrD. 1 hit.

PROSITE

PS51198. UVRD_HELICASE_ATP_BIND. 1 hit.
PS51217. UVRD_HELICASE_CTER. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P03018.

Entry information

Entry name

UVRD_ECOLI

Accession

Primary (citable) accession number: P03018
Secondary accession number(s): P76758, Q2M8B9, Q47709

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 21, 1986
Last sequence update:	April 1, 1988
Last modified:	May 29, 2013
This is version 132 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Sites

Natural variations

Experimental info

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents