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Protein

DNA helicase II

Gene

uvrD

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

Functioni

A helicase with DNA-dependent ATPase activity (PubMed:8419285). Unwinds DNA duplexes with 3' to 5' polarity with respect to the bound strand. Initiates unwinding more efficiently from a nicked substrate than ds duplex DNA (PubMed:8419285). Involved in the post-incision events of nucleotide excision repair and methyl-directed mismatch repair, and probably also in repair of alkylated DNA (Probable).1 Publication1 Publication

Catalytic activityi

ATP + H2O = ADP + phosphate.

Kineticsi

  1. KM=0.05 mM for ATP1 Publication

    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

    • ATP binding Source: UniProtKB-KW
    • DNA binding Source: UniProtKB-KW
    • DNA helicase activity Source: CACAO
    • DNA translocase activity Source: EcoCyc
    • single-stranded DNA-dependent ATP-dependent DNA helicase activity Source: EcoCyc

    GO - Biological processi

    • DNA duplex unwinding Source: EcoCyc
    • DNA unwinding involved in DNA replication Source: InterPro
    • mismatch repair Source: EcoCyc
    • nucleotide-excision repair Source: EcoCyc
    • protein homooligomerization Source: EcoCyc
    • replication fork processing Source: EcoCyc
    • rolling circle DNA replication Source: EcoCyc
    • SOS response Source: UniProtKB-KW
    Complete GO annotation...

    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.
    BRENDAi3.6.4.12. 2026.

    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
    Proteomesi
    • UP000000318 Componenti: Chromosome
    • UP000000625 Componenti: Chromosome

    Organism-specific databases

    EcoGeneiEG11064. uvrD.

    Subcellular locationi

    GO - Cellular componenti

    • cytosol Source: EcoCyc
    Complete GO annotation...

    Pathology & Biotechi

    Disruption phenotypei

    Strongly sensitive to UV, ciprofloxacin (CFX), and azidothymidine (AZT) in single deletion mutants, radA-uvrD double deletions are more sensitive yet. Adding recF mutations almost completely suppresses AZT and partially suppresses UV and CFX sensitivity, suggesting RadA processes a class of intermediates that accumulate in uvrD mutants (PubMed:25484163).1 Publication

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi30 – 301G → D in uvrD252, UV sensitive, significant loss of DNA-dependent ATPase, helicase activity requires higher ATP and MgCl(2), nearly inactive on 96 bp dsDNA. KM for ATP rises to 1.2 mM. 1 Publication

    PTM / Processingi

    Molecule processing

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

    Proteomic databases

    PaxDbiP03018.
    PRIDEiP03018.

    Interactioni

    Binary interactionsi

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

    Protein-protein interaction databases

    BioGridi4263340. 239 interactions.
    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 – 74Combined sources
    Beta strandi8 – 103Combined sources
    Helixi12 – 187Combined sources
    Beta strandi25 – 295Combined sources
    Beta strandi31 – 333Combined sources
    Helixi35 – 4814Combined sources
    Helixi54 – 563Combined sources
    Beta strandi57 – 637Combined sources
    Helixi64 – 7815Combined sources
    Beta strandi86 – 894Combined sources
    Helixi90 – 10011Combined sources
    Helixi103 – 1053Combined sources
    Beta strandi112 – 1143Combined sources
    Helixi116 – 12914Combined sources
    Turni134 – 1363Combined sources
    Helixi139 – 15113Combined sources
    Turni156 – 1583Combined sources
    Helixi166 – 18419Combined sources
    Beta strandi186 – 1883Combined sources
    Helixi189 – 20214Combined sources
    Helixi204 – 21310Combined sources
    Beta strandi216 – 2216Combined sources
    Helixi222 – 2243Combined sources
    Helixi227 – 23711Combined sources
    Turni238 – 2403Combined sources
    Beta strandi242 – 2476Combined sources
    Helixi249 – 2513Combined sources
    Helixi255 – 2573Combined sources
    Helixi263 – 2708Combined sources
    Beta strandi275 – 2795Combined sources
    Beta strandi283 – 2853Combined sources
    Helixi287 – 29711Combined sources
    Beta strandi300 – 3023Combined sources
    Beta strandi318 – 3258Combined sources
    Helixi326 – 34217Combined sources
    Helixi347 – 3493Combined sources
    Beta strandi350 – 3567Combined sources
    Helixi357 – 3593Combined sources
    Helixi360 – 36910Combined sources
    Beta strandi374 – 3796Combined sources
    Helixi382 – 3843Combined sources
    Helixi386 – 39914Combined sources
    Helixi404 – 4107Combined sources
    Helixi420 – 43213Combined sources
    Helixi437 – 44610Combined sources
    Helixi452 – 47120Combined sources
    Turni472 – 4743Combined sources
    Helixi477 – 48711Combined sources
    Helixi490 – 4956Combined sources
    Helixi500 – 51920Combined sources
    Helixi530 – 54011Combined sources
    Helixi542 – 5443Combined sources
    Beta strandi554 – 5585Combined sources
    Helixi560 – 5623Combined sources
    Beta strandi567 – 5726Combined sources
    Turni579 – 5813Combined sources
    Helixi583 – 5864Combined sources
    Beta strandi587 – 5904Combined sources
    Helixi592 – 60312Combined sources
    Beta strandi606 – 62015Combined sources
    Beta strandi623 – 6264Combined sources
    Helixi631 – 6355Combined sources
    Helixi638 – 6403Combined sources
    Beta strandi641 – 6433Combined sources
    Beta strandi646 – 6494Combined sources

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    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

    eggNOGiENOG4105C4R. Bacteria.
    COG0210. LUCA.
    HOGENOMiHOG000033016.
    InParanoidiP03018.
    KOiK03657.
    OMAiRLQIAFQ.
    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

            10         20         30         40         50
    MDVSYLLDSL NDKQREAVAA PRSNLLVLAG AGSGKTRVLV HRIAWLMSVE
    60 70 80 90 100
    NCSPYSIMAV TFTNKAAAEM RHRIGQLMGT SQGGMWVGTF HGLAHRLLRA
    110 120 130 140 150
    HHMDANLPQD FQILDSEDQL RLLKRLIKAM NLDEKQWPPR QAMWYINSQK
    160 170 180 190 200
    DEGLRPHHIQ SYGNPVEQTW QKVYQAYQEA CDRAGLVDFA ELLLRAHELW
    210 220 230 240 250
    LNKPHILQHY RERFTNILVD EFQDTNNIQY AWIRLLAGDT GKVMIVGDDD
    260 270 280 290 300
    QSIYGWRGAQ VENIQRFLND FPGAETIRLE QNYRSTSNIL SAANALIENN
    310 320 330 340 350
    NGRLGKKLWT DGADGEPISL YCAFNELDEA RFVVNRIKTW QDNGGALAEC
    360 370 380 390 400
    AILYRSNAQS RVLEEALLQA SMPYRIYGGM RFFERQEIKD ALSYLRLIAN
    410 420 430 440 450
    RNDDAAFERV VNTPTRGIGD RTLDVVRQTS RDRQLTLWQA CRELLQEKAL
    460 470 480 490 500
    AGRAASALQR FMELIDALAQ ETADMPLHVQ TDRVIKDSGL RTMYEQEKGE
    510 520 530 540 550
    KGQTRIENLE ELVTATRQFS YNEEDEDLMP LQAFLSHAAL EAGEGQADTW
    560 570 580 590 600
    QDAVQLMTLH SAKGLEFPQV FIVGMEEGMF PSQMSLDEGG RLEEERRLAY
    610 620 630 640 650
    VGVTRAMQKL TLTYAETRRL YGKEVYHRPS RFIGELPEEC VEEVRLRATV
    660 670 680 690 700
    SRPVSHQRMG TPMVENDSGY KLGQRVRHAK FGEGTIVNME GSGEHSRLQV
    710 720
    AFQGQGIKWL VAAYARLESV
    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

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    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.
    WP_000383406.1. NZ_LN832404.1.

    Genome annotation databases

    EnsemblBacteriaiAAC76816; AAC76816; b3813.
    BAE77487; BAE77487; BAE77487.
    GeneIDi948347.
    KEGGiecj:JW3786.
    eco:b3813.
    PATRICi32123127. VBIEscCol129921_3929.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    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.
    WP_000383406.1. NZ_LN832404.1.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    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...

    Protein-protein interaction databases

    BioGridi4263340. 239 interactions.
    DIPiDIP-11103N.
    IntActiP03018. 37 interactions.
    MINTiMINT-1223204.
    STRINGi511145.b3813.

    Proteomic databases

    PaxDbiP03018.
    PRIDEiP03018.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiAAC76816; AAC76816; b3813.
    BAE77487; BAE77487; BAE77487.
    GeneIDi948347.
    KEGGiecj:JW3786.
    eco:b3813.
    PATRICi32123127. VBIEscCol129921_3929.

    Organism-specific databases

    EchoBASEiEB1057.
    EcoGeneiEG11064. uvrD.

    Phylogenomic databases

    eggNOGiENOG4105C4R. Bacteria.
    COG0210. LUCA.
    HOGENOMiHOG000033016.
    InParanoidiP03018.
    KOiK03657.
    OMAiRLQIAFQ.
    PhylomeDBiP03018.

    Enzyme and pathway databases

    BioCyciEcoCyc:EG11064-MONOMER.
    ECOL316407:JW3786-MONOMER.
    MetaCyc:EG11064-MONOMER.
    BRENDAi3.6.4.12. 2026.

    Miscellaneous databases

    EvolutionaryTraceiP03018.
    PROiP03018.

    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]
    ProtoNetiSearch...

    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: September 7, 2016
    This is version 155 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

    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.