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P03018

- UVRD_ECOLI

UniProt

P03018 - UVRD_ECOLI

Protein

DNA helicase II

Gene

uvrD

Organism
Escherichia coli (strain K12)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 142 (01 Oct 2014)
      Sequence version 1 (01 Apr 1988)
      Previous versions | rss
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    Functioni

    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 activityi

    ATP + H2O = ADP + phosphate.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei284 – 2841ATPBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi32 – 376ATPPROSITE-ProRule annotation

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. DNA binding Source: UniProtKB-KW
    3. DNA helicase activity Source: CACAO
    4. DNA translocase activity Source: EcoCyc
    5. protein binding Source: IntAct
    6. single-stranded DNA-dependent ATP-dependent DNA helicase activity Source: EcoCyc

    GO - Biological processi

    1. ATP catabolic process Source: GOC
    2. DNA duplex unwinding Source: EcoCyc
    3. DNA unwinding involved in DNA replication Source: InterPro
    4. mismatch repair Source: EcoCyc
    5. nucleotide-excision repair Source: EcoCyc
    6. protein homooligomerization Source: EcoCyc
    7. replication fork processing Source: EcoCyc
    8. rolling circle DNA replication Source: EcoCyc
    9. SOS response Source: EcoCyc

    Keywords - Molecular functioni

    Helicase, Hydrolase

    Keywords - Biological processi

    DNA damage, DNA repair, DNA replication, SOS response

    Keywords - Ligandi

    ATP-binding, DNA-binding, Nucleotide-binding

    Enzyme and pathway databases

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

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA helicase II (EC:3.6.4.12)
    Gene namesi
    Name:uvrD
    Synonyms:mutU, pdeB, rad, recL
    Ordered Locus Names:b3813, JW3786
    OrganismiEscherichia coli (strain K12)
    Taxonomic identifieri83333 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
    ProteomesiUP000000318: Chromosome, UP000000625: Chromosome

    Organism-specific databases

    EcoGeneiEG11064. uvrD.

    Subcellular locationi

    GO - Cellular componenti

    1. cytosol Source: EcoCyc

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 720720DNA helicase IIPRO_0000102072Add
    BLAST

    Proteomic databases

    PaxDbiP03018.
    PRIDEiP03018.

    Expressioni

    Gene expression databases

    GenevestigatoriP03018.

    Interactioni

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    lpdAP0A9P02EBI-559573,EBI-542856
    metEP256652EBI-559573,EBI-551247
    mutLP233677EBI-559573,EBI-554913

    Protein-protein interaction databases

    DIPiDIP-11103N.
    IntActiP03018. 37 interactions.
    MINTiMINT-1223204.
    STRINGi511145.b3813.

    Structurei

    Secondary structure

    1
    720
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi4 – 74
    Beta strandi8 – 103
    Helixi12 – 187
    Beta strandi25 – 295
    Beta strandi31 – 333
    Helixi35 – 4814
    Helixi54 – 563
    Beta strandi57 – 637
    Helixi64 – 7815
    Beta strandi86 – 894
    Helixi90 – 10011
    Helixi103 – 1053
    Beta strandi112 – 1143
    Helixi116 – 12914
    Turni134 – 1363
    Helixi139 – 15113
    Turni156 – 1583
    Helixi166 – 18419
    Beta strandi186 – 1883
    Helixi189 – 20214
    Helixi204 – 21310
    Beta strandi216 – 2216
    Helixi222 – 2243
    Helixi227 – 23711
    Turni238 – 2403
    Beta strandi242 – 2476
    Helixi249 – 2513
    Helixi255 – 2573
    Helixi263 – 2708
    Beta strandi275 – 2795
    Beta strandi283 – 2853
    Helixi287 – 29711
    Beta strandi300 – 3023
    Beta strandi318 – 3258
    Helixi326 – 34217
    Helixi347 – 3493
    Beta strandi350 – 3567
    Helixi357 – 3593
    Helixi360 – 36910
    Beta strandi374 – 3796
    Helixi382 – 3843
    Helixi386 – 39914
    Helixi404 – 4107
    Helixi420 – 43213
    Helixi437 – 44610
    Helixi452 – 47120
    Turni472 – 4743
    Helixi477 – 48711
    Helixi490 – 4956
    Helixi500 – 51920
    Helixi530 – 54011
    Helixi542 – 5443
    Beta strandi554 – 5585
    Helixi560 – 5623
    Beta strandi567 – 5726
    Turni579 – 5813
    Helixi583 – 5864
    Beta strandi587 – 5904
    Helixi592 – 60312
    Beta strandi606 – 62015
    Beta strandi623 – 6264
    Helixi631 – 6355
    Helixi638 – 6403
    Beta strandi641 – 6433
    Beta strandi646 – 6494

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2IS1X-ray2.90A/B1-680[»]
    2IS2X-ray3.00A/B1-680[»]
    2IS4X-ray2.60A/B1-680[»]
    2IS6X-ray2.20A/B1-680[»]
    3LFUX-ray1.80A1-647[»]
    DisProtiDP00684.
    ProteinModelPortaliP03018.
    SMRiP03018. Positions 1-656.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP03018.

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini8 – 286279UvrD-like helicase ATP-bindingPROSITE-ProRule annotationAdd
    BLAST
    Domaini287 – 564278UvrD-like helicase C-terminalPROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the helicase family. UvrD subfamily.Curated
    Contains 1 uvrD-like helicase ATP-binding domain.PROSITE-ProRule annotation
    Contains 1 uvrD-like helicase C-terminal domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG0210.
    HOGENOMiHOG000033016.
    KOiK03657.
    OMAiRLQIAFQ.
    OrthoDBiEOG64N9TW.
    PhylomeDBiP03018.

    Family and domain databases

    Gene3Di1.10.10.160. 1 hit.
    3.40.50.300. 4 hits.
    InterProiIPR013986. 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]
    PANTHERiPTHR11070. PTHR11070. 1 hit.
    PfamiPF00580. UvrD-helicase. 1 hit.
    PF13361. UvrD_C. 1 hit.
    [Graphical view]
    SUPFAMiSSF52540. SSF52540. 1 hit.
    TIGRFAMsiTIGR01075. uvrD. 1 hit.
    PROSITEiPS51198. UVRD_HELICASE_ATP_BIND. 1 hit.
    PS51217. UVRD_HELICASE_CTER. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P03018-1 [UniParc]FASTAAdd to Basket

    « Hide

    MDVSYLLDSL NDKQREAVAA PRSNLLVLAG AGSGKTRVLV HRIAWLMSVE    50
    NCSPYSIMAV TFTNKAAAEM RHRIGQLMGT SQGGMWVGTF HGLAHRLLRA 100
    HHMDANLPQD FQILDSEDQL RLLKRLIKAM NLDEKQWPPR QAMWYINSQK 150
    DEGLRPHHIQ SYGNPVEQTW QKVYQAYQEA CDRAGLVDFA ELLLRAHELW 200
    LNKPHILQHY RERFTNILVD EFQDTNNIQY AWIRLLAGDT GKVMIVGDDD 250
    QSIYGWRGAQ VENIQRFLND FPGAETIRLE QNYRSTSNIL SAANALIENN 300
    NGRLGKKLWT DGADGEPISL YCAFNELDEA RFVVNRIKTW QDNGGALAEC 350
    AILYRSNAQS RVLEEALLQA SMPYRIYGGM RFFERQEIKD ALSYLRLIAN 400
    RNDDAAFERV VNTPTRGIGD RTLDVVRQTS RDRQLTLWQA CRELLQEKAL 450
    AGRAASALQR FMELIDALAQ ETADMPLHVQ TDRVIKDSGL RTMYEQEKGE 500
    KGQTRIENLE ELVTATRQFS YNEEDEDLMP LQAFLSHAAL EAGEGQADTW 550
    QDAVQLMTLH SAKGLEFPQV FIVGMEEGMF PSQMSLDEGG RLEEERRLAY 600
    VGVTRAMQKL TLTYAETRRL YGKEVYHRPS RFIGELPEEC VEEVRLRATV 650
    SRPVSHQRMG TPMVENDSGY KLGQRVRHAK FGEGTIVNME GSGEHSRLQV 700
    AFQGQGIKWL VAAYARLESV 720
    Length:720
    Mass (Da):81,990
    Last modified:April 1, 1988 - v1
    Checksum:iFA68E7267C77B49A
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti224 – 2241D → N in CAA25321. (PubMed:6379604)Curated
    Sequence conflicti291 – 2933SAA → NAR in CAA25321. (PubMed:6379604)Curated
    Sequence conflicti330 – 3301A → T in CAA25321. (PubMed:6379604)Curated
    Sequence conflicti540 – 5401L → V in CAA25321. (PubMed:6379604)Curated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti30 – 301G → D in uvrD252, which is UV sensitive.

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    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.
    PIRiF65185. HJECD2.
    RefSeqiNP_418258.1. NC_000913.3.
    YP_491628.1. NC_007779.1.

    Genome annotation databases

    EnsemblBacteriaiAAC76816; AAC76816; b3813.
    BAE77487; BAE77487; BAE77487.
    GeneIDi12934346.
    948347.
    KEGGiecj:Y75_p3364.
    eco:b3813.
    PATRICi32123127. VBIEscCol129921_3929.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    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 .
    PIRi F65185. HJECD2.
    RefSeqi NP_418258.1. NC_000913.3.
    YP_491628.1. NC_007779.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    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 [» ]
    DisProti DP00684.
    ProteinModelPortali P03018.
    SMRi P03018. Positions 1-656.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-11103N.
    IntActi P03018. 37 interactions.
    MINTi MINT-1223204.
    STRINGi 511145.b3813.

    Proteomic databases

    PaxDbi P03018.
    PRIDEi P03018.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAC76816 ; AAC76816 ; b3813 .
    BAE77487 ; BAE77487 ; BAE77487 .
    GeneIDi 12934346.
    948347.
    KEGGi ecj:Y75_p3364.
    eco:b3813.
    PATRICi 32123127. VBIEscCol129921_3929.

    Organism-specific databases

    EchoBASEi EB1057.
    EcoGenei EG11064. uvrD.

    Phylogenomic databases

    eggNOGi COG0210.
    HOGENOMi HOG000033016.
    KOi K03657.
    OMAi RLQIAFQ.
    OrthoDBi EOG64N9TW.
    PhylomeDBi P03018.

    Enzyme and pathway databases

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

    Miscellaneous databases

    EvolutionaryTracei P03018.
    PROi P03018.

    Gene expression databases

    Genevestigatori P03018.

    Family and domain databases

    Gene3Di 1.10.10.160. 1 hit.
    3.40.50.300. 4 hits.
    InterProi 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 ]
    PANTHERi PTHR11070. PTHR11070. 1 hit.
    Pfami PF00580. UvrD-helicase. 1 hit.
    PF13361. UvrD_C. 1 hit.
    [Graphical view ]
    SUPFAMi SSF52540. SSF52540. 1 hit.
    TIGRFAMsi TIGR01075. uvrD. 1 hit.
    PROSITEi PS51198. UVRD_HELICASE_ATP_BIND. 1 hit.
    PS51217. UVRD_HELICASE_CTER. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    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. 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.

    Entry informationi

    Entry nameiUVRD_ECOLI
    AccessioniPrimary (citable) accession number: P03018
    Secondary accession number(s): P76758, Q2M8B9, Q47709
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 21, 1986
    Last sequence update: April 1, 1988
    Last modified: October 1, 2014
    This is version 142 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, Direct protein sequencing, 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