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Q9BQ83

- SLX1_HUMAN

UniProt

Q9BQ83 - SLX1_HUMAN

Protein

Structure-specific endonuclease subunit SLX1

Gene

SLX1A

more
Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 102 (01 Oct 2014)
      Sequence version 1 (01 Jun 2001)
      Previous versions | rss
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    Functioni

    Catalytic subunit of the SLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA. Has a preference for 5'-flap structures, and promotes symmetrical cleavage of static and migrating Holliday junctions (HJs). Resolves HJs by generating two pairs of ligatable, nicked duplex products.3 PublicationsUniRule annotation

    Cofactori

    Divalent cation.

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri186 – 23853SLX1-typeUniRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. 5'-flap endonuclease activity Source: UniProtKB
    2. crossover junction endodeoxyribonuclease activity Source: UniProtKB
    3. metal ion binding Source: UniProtKB-KW
    4. protein binding Source: UniProtKB

    GO - Biological processi

    1. DNA catabolic process, endonucleolytic Source: GOC
    2. DNA double-strand break processing involved in repair via single-strand annealing Source: UniProtKB
    3. DNA repair Source: UniProtKB
    4. double-strand break repair via homologous recombination Source: UniProtKB

    Keywords - Molecular functioni

    Endonuclease, Hydrolase, Nuclease

    Keywords - Biological processi

    DNA damage, DNA recombination, DNA repair

    Keywords - Ligandi

    Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Structure-specific endonuclease subunit SLX1UniRule annotation (EC:3.6.1.-UniRule annotation)
    Alternative name(s):
    GIY-YIG domain-containing protein 1UniRule annotation
    Gene namesi
    Name:SLX1AUniRule annotation
    Synonyms:GIYD1UniRule annotation, SLX1
    AND
    Name:SLX1BUniRule annotation
    Synonyms:GIYD2, SLX1
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome 16

    Organism-specific databases

    HGNCiHGNC:20922. SLX1A.
    HGNC:28748. SLX1B.

    Subcellular locationi

    Nucleus 1 PublicationUniRule annotation

    GO - Cellular componenti

    1. Slx1-Slx4 complex Source: UniProtKB

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi41 – 411R → A: Abolishes endonucleolytic activity. 1 Publication
    Mutagenesisi82 – 821E → A: Abolishes endonucleolytic activity. 2 Publications

    Organism-specific databases

    PharmGKBiPA142671738.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 275275Structure-specific endonuclease subunit SLX1PRO_0000332120Add
    BLAST

    Proteomic databases

    PaxDbiQ9BQ83.
    PRIDEiQ9BQ83.

    Expressioni

    Gene expression databases

    BgeeiQ9BQ83.
    GenevestigatoriQ9BQ83.

    Organism-specific databases

    HPAiHPA047038.

    Interactioni

    Subunit structurei

    Forms a heterodimer with SLX4.

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    SLX4Q8IY9210EBI-2370858,EBI-2370740

    Protein-protein interaction databases

    BioGridi122479. 42 interactions.
    139225. 6 interactions.
    IntActiQ9BQ83. 53 interactions.
    STRINGi9606.ENSP00000328940.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9BQ83.
    SMRiQ9BQ83. Positions 16-93, 184-243.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini12 – 9584GIY-YIGUniRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the SLX1 family.UniRule annotation
    Contains 1 GIY-YIG domain.UniRule annotation
    Contains 1 SLX1-type zinc finger.UniRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri186 – 23853SLX1-typeUniRule annotationAdd
    BLAST

    Keywords - Domaini

    Zinc-finger

    Phylogenomic databases

    eggNOGiNOG296745.
    HOGENOMiHOG000008012.
    InParanoidiQ9BQ83.
    KOiK15078.
    OMAiGRIYIGF.
    PhylomeDBiQ9BQ83.
    TreeFamiTF352344.

    Family and domain databases

    HAMAPiMF_03100. Endonuc_su_Slx1.
    InterProiIPR000305. GIY-YIG_SF.
    IPR027520. Slx1.
    [Graphical view]
    PfamiPF01541. GIY-YIG. 1 hit.
    [Graphical view]
    SUPFAMiSSF82771. SSF82771. 1 hit.
    PROSITEiPS50164. GIY_YIG. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q9BQ83-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MGPAGVAARP GRFFGVYLLY CLNPRYRGRV YVGFTVNTAR RVQQHNGGRK    50
    KGGAWRTSGR GPWEMVLVVH GFPSSVAALR FEWAWQHPHA SRRLAHVGPR 100
    LRGETAFAFH LRVLAHMLRA PPWARLPLTL RWVRPDLRQD LCLPPPPHVP 150
    LAFGPPPPQA PAPRRRAGPF DDAEPEPDQG DPGACCSLCA QTIQDEEGPL 200
    CCPHPGCLLR AHVICLAEEF LQEEPGQLLP LEGQCPCCEK SLLWGDLIWL 250
    CQMDTEKEVE DSELEEAHWT DLLET 275
    Length:275
    Mass (Da):30,771
    Last modified:June 1, 2001 - v1
    Checksum:i57DF055F2E59CF70
    GO
    Isoform 2 (identifier: Q9BQ83-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         81-194: Missing.

    Show »
    Length:161
    Mass (Da):18,012
    Checksum:i4182E39967F1FDE9
    GO

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei81 – 194114Missing in isoform 2. 1 PublicationVSP_033331Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AC106782 Genomic DNA. No translation available.
    AC133555 Genomic DNA. No translation available.
    BC000754 mRNA. Translation: AAH00754.1.
    BC000803 mRNA. Translation: AAH00803.1.
    BC015990 mRNA. Translation: AAH15990.1.
    BC019306 mRNA. Translation: AAH19306.1.
    BC069007 mRNA. Translation: AAH69007.1.
    BC130545 mRNA. Translation: AAI30546.1.
    BC130547 mRNA. Translation: AAI30548.1.
    BC144462 mRNA. Translation: AAI44463.1.
    CCDSiCCDS10648.1. [Q9BQ83-1]
    CCDS10649.1. [Q9BQ83-2]
    CCDS32431.1. [Q9BQ83-1]
    CCDS32432.1. [Q9BQ83-2]
    RefSeqiNP_001014999.1. NM_001014999.2. [Q9BQ83-1]
    NP_001015000.1. NM_001015000.2. [Q9BQ83-2]
    NP_076949.1. NM_024044.3. [Q9BQ83-1]
    NP_835145.1. NM_178044.2. [Q9BQ83-2]
    UniGeneiHs.728161.
    Hs.729791.

    Genome annotation databases

    EnsembliENST00000251303; ENSP00000251303; ENSG00000132207. [Q9BQ83-1]
    ENST00000330181; ENSP00000328940; ENSG00000181625. [Q9BQ83-1]
    ENST00000345535; ENSP00000333945; ENSG00000132207. [Q9BQ83-2]
    ENST00000351581; ENSP00000335316; ENSG00000181625. [Q9BQ83-2]
    GeneIDi548593.
    79008.
    KEGGihsa:548593.
    hsa:79008.
    UCSCiuc002dsx.3. human. [Q9BQ83-1]
    uc002dsy.3. human. [Q9BQ83-2]

    Polymorphism databases

    DMDMi74732820.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AC106782 Genomic DNA. No translation available.
    AC133555 Genomic DNA. No translation available.
    BC000754 mRNA. Translation: AAH00754.1 .
    BC000803 mRNA. Translation: AAH00803.1 .
    BC015990 mRNA. Translation: AAH15990.1 .
    BC019306 mRNA. Translation: AAH19306.1 .
    BC069007 mRNA. Translation: AAH69007.1 .
    BC130545 mRNA. Translation: AAI30546.1 .
    BC130547 mRNA. Translation: AAI30548.1 .
    BC144462 mRNA. Translation: AAI44463.1 .
    CCDSi CCDS10648.1. [Q9BQ83-1 ]
    CCDS10649.1. [Q9BQ83-2 ]
    CCDS32431.1. [Q9BQ83-1 ]
    CCDS32432.1. [Q9BQ83-2 ]
    RefSeqi NP_001014999.1. NM_001014999.2. [Q9BQ83-1 ]
    NP_001015000.1. NM_001015000.2. [Q9BQ83-2 ]
    NP_076949.1. NM_024044.3. [Q9BQ83-1 ]
    NP_835145.1. NM_178044.2. [Q9BQ83-2 ]
    UniGenei Hs.728161.
    Hs.729791.

    3D structure databases

    ProteinModelPortali Q9BQ83.
    SMRi Q9BQ83. Positions 16-93, 184-243.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 122479. 42 interactions.
    139225. 6 interactions.
    IntActi Q9BQ83. 53 interactions.
    STRINGi 9606.ENSP00000328940.

    Polymorphism databases

    DMDMi 74732820.

    Proteomic databases

    PaxDbi Q9BQ83.
    PRIDEi Q9BQ83.

    Protocols and materials databases

    DNASUi 548593.
    79008.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000251303 ; ENSP00000251303 ; ENSG00000132207 . [Q9BQ83-1 ]
    ENST00000330181 ; ENSP00000328940 ; ENSG00000181625 . [Q9BQ83-1 ]
    ENST00000345535 ; ENSP00000333945 ; ENSG00000132207 . [Q9BQ83-2 ]
    ENST00000351581 ; ENSP00000335316 ; ENSG00000181625 . [Q9BQ83-2 ]
    GeneIDi 548593.
    79008.
    KEGGi hsa:548593.
    hsa:79008.
    UCSCi uc002dsx.3. human. [Q9BQ83-1 ]
    uc002dsy.3. human. [Q9BQ83-2 ]

    Organism-specific databases

    CTDi 548593.
    79008.
    GeneCardsi GC16P029481.
    GC16P030215.
    HGNCi HGNC:20922. SLX1A.
    HGNC:28748. SLX1B.
    HPAi HPA047038.
    MIMi 615822. gene.
    615823. gene.
    neXtProti NX_Q9BQ83.
    PharmGKBi PA142671738.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG296745.
    HOGENOMi HOG000008012.
    InParanoidi Q9BQ83.
    KOi K15078.
    OMAi GRIYIGF.
    PhylomeDBi Q9BQ83.
    TreeFami TF352344.

    Miscellaneous databases

    NextBioi 112282.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q9BQ83.
    Genevestigatori Q9BQ83.

    Family and domain databases

    HAMAPi MF_03100. Endonuc_su_Slx1.
    InterProi IPR000305. GIY-YIG_SF.
    IPR027520. Slx1.
    [Graphical view ]
    Pfami PF01541. GIY-YIG. 1 hit.
    [Graphical view ]
    SUPFAMi SSF82771. SSF82771. 1 hit.
    PROSITEi PS50164. GIY_YIG. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The sequence and analysis of duplication-rich human chromosome 16."
      Martin J., Han C., Gordon L.A., Terry A., Prabhakar S., She X., Xie G., Hellsten U., Chan Y.M., Altherr M., Couronne O., Aerts A., Bajorek E., Black S., Blumer H., Branscomb E., Brown N.C., Bruno W.J.
      , Buckingham J.M., Callen D.F., Campbell C.S., Campbell M.L., Campbell E.W., Caoile C., Challacombe J.F., Chasteen L.A., Chertkov O., Chi H.C., Christensen M., Clark L.M., Cohn J.D., Denys M., Detter J.C., Dickson M., Dimitrijevic-Bussod M., Escobar J., Fawcett J.J., Flowers D., Fotopulos D., Glavina T., Gomez M., Gonzales E., Goodstein D., Goodwin L.A., Grady D.L., Grigoriev I., Groza M., Hammon N., Hawkins T., Haydu L., Hildebrand C.E., Huang W., Israni S., Jett J., Jewett P.B., Kadner K., Kimball H., Kobayashi A., Krawczyk M.-C., Leyba T., Longmire J.L., Lopez F., Lou Y., Lowry S., Ludeman T., Manohar C.F., Mark G.A., McMurray K.L., Meincke L.J., Morgan J., Moyzis R.K., Mundt M.O., Munk A.C., Nandkeshwar R.D., Pitluck S., Pollard M., Predki P., Parson-Quintana B., Ramirez L., Rash S., Retterer J., Ricke D.O., Robinson D.L., Rodriguez A., Salamov A., Saunders E.H., Scott D., Shough T., Stallings R.L., Stalvey M., Sutherland R.D., Tapia R., Tesmer J.G., Thayer N., Thompson L.S., Tice H., Torney D.C., Tran-Gyamfi M., Tsai M., Ulanovsky L.E., Ustaszewska A., Vo N., White P.S., Williams A.L., Wills P.L., Wu J.-R., Wu K., Yang J., DeJong P., Bruce D., Doggett N.A., Deaven L., Schmutz J., Grimwood J., Richardson P., Rokhsar D.S., Eichler E.E., Gilna P., Lucas S.M., Myers R.M., Rubin E.M., Pennacchio L.A.
      Nature 432:988-994(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    2. "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] (ISOFORMS 1 AND 2).
      Tissue: B-cell, Lung and Placenta.
    3. Cited for: IDENTIFICATION.
    4. "Mammalian BTBD12/SLX4 assembles a Holliday junction resolvase and is required for DNA repair."
      Svendsen J.M., Smogorzewska A., Sowa M.E., O'Connell B.C., Gygi S.P., Elledge S.J., Harper J.W.
      Cell 138:63-77(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH SLX4, MUTAGENESIS OF GLU-82.
    5. "Human SLX4 is a Holliday junction resolvase subunit that binds multiple DNA repair/recombination endonucleases."
      Fekairi S., Scaglione S., Chahwan C., Taylor E.R., Tissier A., Coulon S., Dong M.-Q., Ruse C., Yates J.R. III, Russell P., Fuchs R.P., McGowan C.H., Gaillard P.-H.L.
      Cell 138:78-89(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH SLX4, MUTAGENESIS OF ARG-41 AND GLU-82, SUBCELLULAR LOCATION.
    6. Cited for: FUNCTION, INTERACTION WITH SLX4.

    Entry informationi

    Entry nameiSLX1_HUMAN
    AccessioniPrimary (citable) accession number: Q9BQ83
    Secondary accession number(s): B7ZME1, Q6NTG6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 29, 2008
    Last sequence update: June 1, 2001
    Last modified: October 1, 2014
    This is version 102 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Caution

    Found in a segmental duplication on p arm of chromosome 16 giving rise to two identical copies of this gene sharing exons with SULT1A3 and SULT1A4.Curated

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome 16
      Human chromosome 16: entries, gene names and cross-references to MIM
    2. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3