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Q9QZD4

- XPF_MOUSE

UniProt

Q9QZD4 - XPF_MOUSE

Protein

DNA repair endonuclease XPF

Gene

Ercc4

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 107 (01 Oct 2014)
      Sequence version 3 (05 May 2009)
      Previous versions | rss
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    Functioni

    Catalytic component of a structure-specific DNA repair endonuclease responsible for the 5-prime incision during DNA repair. Involved in homologous recombination that assists in removing interstrand cross-link By similarity.By similarity

    Cofactori

    Magnesium.By similarity

    GO - Molecular functioni

    1. damaged DNA binding Source: RefGenome
    2. protein binding Source: MGI
    3. single-stranded DNA binding Source: RefGenome
    4. single-stranded DNA endodeoxyribonuclease activity Source: RefGenome
    5. TFIID-class transcription factor binding Source: MGI

    GO - Biological processi

    1. DNA catabolic process, endonucleolytic Source: GOC
    2. DNA repair Source: MGI
    3. double-strand break repair via homologous recombination Source: RefGenome
    4. negative regulation of telomere maintenance Source: Ensembl
    5. nucleotide-excision repair Source: MGI
    6. nucleotide-excision repair, DNA incision, 3'-to lesion Source: Ensembl
    7. nucleotide-excision repair, DNA incision, 5'-to lesion Source: RefGenome
    8. nucleotide-excision repair involved in interstrand cross-link repair Source: RefGenome
    9. resolution of meiotic recombination intermediates Source: RefGenome
    10. telomere maintenance via telomere shortening Source: Ensembl
    11. UV protection Source: MGI

    Keywords - Molecular functioni

    Endonuclease, Hydrolase, Nuclease

    Keywords - Biological processi

    DNA damage, DNA repair

    Keywords - Ligandi

    DNA-binding, Magnesium

    Enzyme and pathway databases

    ReactomeiREACT_223654. Formation of transcription-coupled NER (TC-NER) repair complex.
    REACT_224562. Dual incision reaction in TC-NER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA repair endonuclease XPF (EC:3.1.-.-)
    Alternative name(s):
    DNA excision repair protein ERCC-4
    Gene namesi
    Name:Ercc4
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 16

    Organism-specific databases

    MGIiMGI:1354163. Ercc4.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. nuclear chromosome, telomeric region Source: Ensembl
    2. nucleotide-excision repair complex Source: MGI
    3. nucleotide-excision repair factor 1 complex Source: RefGenome
    4. transcription factor TFIID complex Source: MGI

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 917917DNA repair endonuclease XPFPRO_0000198854Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei289 – 2891N6-acetyllysineBy similarity

    Keywords - PTMi

    Acetylation

    Proteomic databases

    MaxQBiQ9QZD4.
    PaxDbiQ9QZD4.
    PRIDEiQ9QZD4.

    PTM databases

    PhosphoSiteiQ9QZD4.

    Expressioni

    Gene expression databases

    ArrayExpressiQ9QZD4.
    BgeeiQ9QZD4.
    GenevestigatoriQ9QZD4.

    Interactioni

    Subunit structurei

    Heterodimer composed of ERCC1 and XPF/ERCC4. Interacts with SLX4/BTBD12; this interaction is direct and links the ERCC1-XPF/ERCC1 complex to SLX4, which may coordinate the action of the structure-specific endonuclease during DNA repair By similarity.By similarity

    Structurei

    3D structure databases

    ProteinModelPortaliQ9QZD4.
    SMRiQ9QZD4. Positions 677-819, 835-917.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini684 – 76481ERCC4Add
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni1 – 457457Helicase-likeBy similarityAdd
    BLAST
    Regioni233 – 25422Leucine-zipper 1Add
    BLAST
    Regioni270 – 29829Leucine-zipper 2Add
    BLAST
    Regioni659 – 814156NucleaseBy similarityAdd
    BLAST
    Regioni838 – 90669HhH2, dimerization with ERCC1By similarityAdd
    BLAST

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi487 – 4926Nuclear localization signalSequence Analysis

    Sequence similaritiesi

    Belongs to the XPF family.Curated
    Contains 1 ERCC4 domain.Curated

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiCOG1948.
    GeneTreeiENSGT00390000004394.
    HOGENOMiHOG000202204.
    HOVERGENiHBG051500.
    InParanoidiQ9QZD4.
    KOiK10848.
    OMAiRIIWSSS.
    OrthoDBiEOG7VTDM8.
    PhylomeDBiQ9QZD4.
    TreeFamiTF101234.

    Family and domain databases

    Gene3Di3.40.50.10130. 1 hit.
    InterProiIPR020819. DNA_repair_nuc_XPF/helicase.
    IPR006166. ERCC4_domain.
    IPR006167. Rad1.
    IPR011335. Restrct_endonuc-II-like.
    IPR010994. RuvA_2-like.
    [Graphical view]
    PfamiPF02732. ERCC4. 1 hit.
    [Graphical view]
    SMARTiSM00891. ERCC4. 1 hit.
    [Graphical view]
    SUPFAMiSSF47781. SSF47781. 1 hit.
    SSF52980. SSF52980. 1 hit.
    TIGRFAMsiTIGR00596. rad1. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q9QZD4-1 [UniParc]FASTAAdd to Basket

    « Hide

    MEPGLSGERR SMAPLLEYER QQVLELLDSD GLVVCARGLG TDRLLYHFLR    50
    LHCHPACLVL VLNTQPAEEE YFINQLKIEG VEHLPRRVTN EIASNSRYEV 100
    YTQGGIIFAT SRILVVDFLT GRIPSDLITG ILVYRAHRII ESCQEAFILR 150
    LFRQKNKRGF IKAFTDNAVA FDTGFCHVER VMRNLFVRKL YLWPRFHVAV 200
    NSFLEQHKPE VVEIHVSMTP AMLAIQTAIL DILNACLKEL KCHNPSLEVE 250
    DLSLENALGK PFDKTIRHYL DPLWHQLGAK TKSLVQDLKI LRTLLQYLSQ 300
    YDCVTFLNLL ESLRATEKVF GQNSGWLFLD ASTSMFVNAR ARVYRVPDVK 350
    LNKKAKTSEK TSSPEVQETK KELVLESNPK WEALTDVLKE IEAENKESEA 400
    LGGPGRVLIC ASDDRTCCQL RDYLSAGAET FLLRLYRKTF EKDGKAEEVW 450
    VNVRKGDGPK RTTKSDKRPK AAPNKERASA KRGAPLKRKK QELTLTQVLG 500
    SAEEPPEDKA LEEDLCRQTS SSPEGCGVEI KRESFDLNVS SDAAYGILKE 550
    PLTIIHPLLG CSDPYALTRV LHEVEPRYVV LYDAELTFVR QLEIYRASRP 600
    GKPLRVYFLI YGGSTEEQRY LTALRKEKEA FEKLIREKAS MVVPEEREGR 650
    DETNLDLARG SAALDAPTDT RKAGGQEQNG TQSSIVVDMR EFRSELPSLI 700
    HRRGIDIEPV TLEVGDYILT PELCVERKSV SDLIGSLHSG RLYSQCLAMS 750
    RYYRRPVLLI EFDPSKPFSL APRGAFFQEM SSSDVSSKLT LLTLHFPRLR 800
    LLWCPSPHAT AELFEELKQN KPQPDAATAM AITADSETLP ESDRYNPGPQ 850
    DFVLKMPGVN AKNCRSLMNQ VKNIAELATL SLERLTTILG HSGNAKQLHD 900
    FLHTAYADLV SKGRVRK 917
    Length:917
    Mass (Da):103,690
    Last modified:May 5, 2009 - v3
    Checksum:i2206DC264BC4E233
    GO

    Sequence cautioni

    The sequence AAH26792.1 differs from that shown. Reason: Erroneous initiation.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti30 – 301D → N in AAF03157. (PubMed:10644440)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF189285 mRNA. Translation: AAF03157.1.
    AC004155 Genomic DNA. Translation: AAC03240.1.
    BC026792 mRNA. Translation: AAH26792.1. Different initiation.
    CCDSiCCDS37256.1.
    RefSeqiNP_056584.2. NM_015769.2.
    UniGeneiMm.287837.

    Genome annotation databases

    EnsembliENSMUST00000023206; ENSMUSP00000023206; ENSMUSG00000022545.
    GeneIDi50505.
    KEGGimmu:50505.
    UCSCiuc007yfx.2. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF189285 mRNA. Translation: AAF03157.1 .
    AC004155 Genomic DNA. Translation: AAC03240.1 .
    BC026792 mRNA. Translation: AAH26792.1 . Different initiation.
    CCDSi CCDS37256.1.
    RefSeqi NP_056584.2. NM_015769.2.
    UniGenei Mm.287837.

    3D structure databases

    ProteinModelPortali Q9QZD4.
    SMRi Q9QZD4. Positions 677-819, 835-917.
    ModBasei Search...
    MobiDBi Search...

    PTM databases

    PhosphoSitei Q9QZD4.

    Proteomic databases

    MaxQBi Q9QZD4.
    PaxDbi Q9QZD4.
    PRIDEi Q9QZD4.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000023206 ; ENSMUSP00000023206 ; ENSMUSG00000022545 .
    GeneIDi 50505.
    KEGGi mmu:50505.
    UCSCi uc007yfx.2. mouse.

    Organism-specific databases

    CTDi 2072.
    MGIi MGI:1354163. Ercc4.

    Phylogenomic databases

    eggNOGi COG1948.
    GeneTreei ENSGT00390000004394.
    HOGENOMi HOG000202204.
    HOVERGENi HBG051500.
    InParanoidi Q9QZD4.
    KOi K10848.
    OMAi RIIWSSS.
    OrthoDBi EOG7VTDM8.
    PhylomeDBi Q9QZD4.
    TreeFami TF101234.

    Enzyme and pathway databases

    Reactomei REACT_223654. Formation of transcription-coupled NER (TC-NER) repair complex.
    REACT_224562. Dual incision reaction in TC-NER.

    Miscellaneous databases

    NextBioi 307508.
    PROi Q9QZD4.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q9QZD4.
    Bgeei Q9QZD4.
    Genevestigatori Q9QZD4.

    Family and domain databases

    Gene3Di 3.40.50.10130. 1 hit.
    InterProi IPR020819. DNA_repair_nuc_XPF/helicase.
    IPR006166. ERCC4_domain.
    IPR006167. Rad1.
    IPR011335. Restrct_endonuc-II-like.
    IPR010994. RuvA_2-like.
    [Graphical view ]
    Pfami PF02732. ERCC4. 1 hit.
    [Graphical view ]
    SMARTi SM00891. ERCC4. 1 hit.
    [Graphical view ]
    SUPFAMi SSF47781. SSF47781. 1 hit.
    SSF52980. SSF52980. 1 hit.
    TIGRFAMsi TIGR00596. rad1. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Characterization of the mouse xpf DNA repair gene and differential expression during spermatogenesis."
      Shannon M., Lamerdin J.E., Richardson L., McCutchen-Maloney S.L., Hwang M.H., Handel M.A., Stubbs L., Thelen M.P.
      Genomics 62:427-435(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    2. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 5-917.
      Tissue: Salivary gland.

    Entry informationi

    Entry nameiXPF_MOUSE
    AccessioniPrimary (citable) accession number: Q9QZD4
    Secondary accession number(s): O54810, Q8R0I3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 13, 2004
    Last sequence update: May 5, 2009
    Last modified: October 1, 2014
    This is version 107 of the entry and version 3 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3