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Q87SC6

- END4_VIBPA

UniProt

Q87SC6 - END4_VIBPA

Protein

Probable endonuclease 4

Gene

nfo

Organism
Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 75 (01 Oct 2014)
      Sequence version 1 (23 May 2003)
      Previous versions | rss
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    Functioni

    Endonuclease IV plays a role in DNA repair. It cleaves phosphodiester bonds at apurinic or apyrimidinic sites (AP sites) to produce new 5'-ends that are base-free deoxyribose 5-phosphate residues. It preferentially attacks modified AP sites created by bleomycin and neocarzinostatin.UniRule annotation

    Catalytic activityi

    Endonucleolytic cleavage to 5'-phosphooligonucleotide end-products.UniRule annotation

    Cofactori

    Binds 3 zinc ions.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi78 – 781Zinc 1UniRule annotation
    Metal bindingi118 – 1181Zinc 1UniRule annotation
    Metal bindingi154 – 1541Zinc 1UniRule annotation
    Metal bindingi154 – 1541Zinc 2UniRule annotation
    Metal bindingi188 – 1881Zinc 2UniRule annotation
    Metal bindingi191 – 1911Zinc 3UniRule annotation
    Metal bindingi225 – 2251Zinc 2UniRule annotation
    Metal bindingi238 – 2381Zinc 3UniRule annotation
    Metal bindingi240 – 2401Zinc 3UniRule annotation
    Metal bindingi270 – 2701Zinc 2UniRule annotation

    GO - Molecular functioni

    1. deoxyribonuclease IV (phage-T4-induced) activity Source: UniProtKB-HAMAP
    2. DNA binding Source: InterPro
    3. zinc ion binding Source: UniProtKB-HAMAP

    GO - Biological processi

    1. DNA repair Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Endonuclease, Hydrolase, Nuclease

    Keywords - Biological processi

    DNA damage, DNA repair

    Keywords - Ligandi

    Metal-binding, Zinc

    Enzyme and pathway databases

    BioCyciVPAR223926:GHK4-510-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Probable endonuclease 4UniRule annotation (EC:3.1.21.2UniRule annotation)
    Alternative name(s):
    Endodeoxyribonuclease IVUniRule annotation
    Endonuclease IVUniRule annotation
    Gene namesi
    Name:nfoUniRule annotation
    Ordered Locus Names:VP0498
    OrganismiVibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
    Taxonomic identifieri223926 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
    ProteomesiUP000002493: Chromosome 1

    Subcellular locationi

    GO - Cellular componenti

    1. intracellular Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 295295Probable endonuclease 4PRO_0000190885Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi223926.VP0498.

    Structurei

    3D structure databases

    ProteinModelPortaliQ87SC6.
    SMRiQ87SC6. Positions 11-285.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the AP endonuclease 2 family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0648.
    HOGENOMiHOG000224893.
    KOiK01151.
    OMAiDEINWIN.
    OrthoDBiEOG6Z0QCM.

    Family and domain databases

    Gene3Di3.20.20.150. 1 hit.
    HAMAPiMF_00152. Nfo.
    InterProiIPR001719. AP_endonuc_2.
    IPR018246. AP_endonuc_F2_Zn_BS.
    IPR013022. Xyl_isomerase-like_TIM-brl.
    [Graphical view]
    PANTHERiPTHR21445. PTHR21445. 1 hit.
    PfamiPF01261. AP_endonuc_2. 1 hit.
    [Graphical view]
    SMARTiSM00518. AP2Ec. 1 hit.
    [Graphical view]
    SUPFAMiSSF51658. SSF51658. 1 hit.
    TIGRFAMsiTIGR00587. nfo. 1 hit.
    PROSITEiPS00729. AP_NUCLEASE_F2_1. 1 hit.
    PS00730. AP_NUCLEASE_F2_2. 1 hit.
    PS00731. AP_NUCLEASE_F2_3. 1 hit.
    PS51432. AP_NUCLEASE_F2_4. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q87SC6-1 [UniParc]FASTAAdd to Basket

    « Hide

    MTNMKNKFGN KLIGAHVSAA GGVDQAPLRA REIGANAFAL FTKNQRQWVA    50
    KPLEAKTISA FKANCKMLGF GAEHILPHDS YLINLGAPEA EKLDKSRAAF 100
    IDEMERCNQL GLTLLNFHPG SHLKKVSEQE CLATIAESIN LAHKTVPDVV 150
    AVIENTAGQG TNLGWKFEHL AEIIEQVEDK DRVGVCIDTC HTFTAGYDLR 200
    TKEDCERTFA EFDRIVGMHY LRAMHLNDSK VEFASKVDRH HSLGKGEIGW 250
    DCFEYIAKDS RFDGIPLILE TIDPDIWQQE INTLRQFHLA AINNQ 295
    Length:295
    Mass (Da):33,017
    Last modified:May 23, 2003 - v1
    Checksum:i784D0378858E3E0C
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000031 Genomic DNA. Translation: BAC58761.1.
    RefSeqiNP_796877.1. NC_004603.1.

    Genome annotation databases

    EnsemblBacteriaiBAC58761; BAC58761; BAC58761.
    GeneIDi1187966.
    KEGGivpa:VP0498.
    PATRICi20139202. VBIVibPar50997_0475.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000031 Genomic DNA. Translation: BAC58761.1 .
    RefSeqi NP_796877.1. NC_004603.1.

    3D structure databases

    ProteinModelPortali Q87SC6.
    SMRi Q87SC6. Positions 11-285.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 223926.VP0498.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAC58761 ; BAC58761 ; BAC58761 .
    GeneIDi 1187966.
    KEGGi vpa:VP0498.
    PATRICi 20139202. VBIVibPar50997_0475.

    Phylogenomic databases

    eggNOGi COG0648.
    HOGENOMi HOG000224893.
    KOi K01151.
    OMAi DEINWIN.
    OrthoDBi EOG6Z0QCM.

    Enzyme and pathway databases

    BioCyci VPAR223926:GHK4-510-MONOMER.

    Family and domain databases

    Gene3Di 3.20.20.150. 1 hit.
    HAMAPi MF_00152. Nfo.
    InterProi IPR001719. AP_endonuc_2.
    IPR018246. AP_endonuc_F2_Zn_BS.
    IPR013022. Xyl_isomerase-like_TIM-brl.
    [Graphical view ]
    PANTHERi PTHR21445. PTHR21445. 1 hit.
    Pfami PF01261. AP_endonuc_2. 1 hit.
    [Graphical view ]
    SMARTi SM00518. AP2Ec. 1 hit.
    [Graphical view ]
    SUPFAMi SSF51658. SSF51658. 1 hit.
    TIGRFAMsi TIGR00587. nfo. 1 hit.
    PROSITEi PS00729. AP_NUCLEASE_F2_1. 1 hit.
    PS00730. AP_NUCLEASE_F2_2. 1 hit.
    PS00731. AP_NUCLEASE_F2_3. 1 hit.
    PS51432. AP_NUCLEASE_F2_4. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Genome sequence of Vibrio parahaemolyticus: a pathogenic mechanism distinct from that of V. cholerae."
      Makino K., Oshima K., Kurokawa K., Yokoyama K., Uda T., Tagomori K., Iijima Y., Najima M., Nakano M., Yamashita A., Kubota Y., Kimura S., Yasunaga T., Honda T., Shinagawa H., Hattori M., Iida T.
      Lancet 361:743-749(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: RIMD 2210633.

    Entry informationi

    Entry nameiEND4_VIBPA
    AccessioniPrimary (citable) accession number: Q87SC6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 23, 2003
    Last sequence update: May 23, 2003
    Last modified: October 1, 2014
    This is version 75 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

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3