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A4IGY9

- SETB2_XENTR

UniProt

A4IGY9 - SETB2_XENTR

Protein

Histone-lysine N-methyltransferase SETDB2

Gene

setdb2

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 51 (01 Oct 2014)
      Sequence version 1 (01 May 2007)
      Previous versions | rss
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    Functioni

    Histone methyltransferase involved in left-right axis specification in early development and mitosis. Specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). H3K9me3 represents a specific tag for epigenetic transcriptional repression by recruiting HP1 (CBX1, CBX3 and/or CBX5) proteins to methylated histones. Contributes to H3K9me3 in both the interspersed repetitive elements and centromere-associated repeats. Plays a role in chromosome condensation and segregation during mitosis By similarity.By similarity

    Catalytic activityi

    S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi306 – 3061Zinc 1By similarity
    Metal bindingi306 – 3061Zinc 2By similarity
    Metal bindingi308 – 3081Zinc 1By similarity
    Metal bindingi312 – 3121Zinc 1By similarity
    Metal bindingi312 – 3121Zinc 3By similarity
    Metal bindingi318 – 3181Zinc 1By similarity
    Metal bindingi320 – 3201Zinc 2By similarity
    Metal bindingi359 – 3591Zinc 2By similarity
    Metal bindingi359 – 3591Zinc 3By similarity
    Metal bindingi363 – 3631Zinc 2By similarity
    Metal bindingi365 – 3651Zinc 3By similarity
    Metal bindingi370 – 3701Zinc 3By similarity
    Binding sitei626 – 6261S-adenosyl-L-methioninePROSITE-ProRule annotation
    Metal bindingi632 – 6321Zinc 4By similarity
    Metal bindingi685 – 6851Zinc 4By similarity
    Metal bindingi687 – 6871Zinc 4By similarity
    Metal bindingi692 – 6921Zinc 4By similarity

    GO - Molecular functioni

    1. DNA binding Source: InterPro
    2. histone methyltransferase activity (H3-K9 specific) Source: UniProtKB
    3. zinc ion binding Source: InterPro

    GO - Biological processi

    1. chromosome segregation Source: UniProtKB
    2. heart looping Source: UniProtKB
    3. histone H3-K9 methylation Source: UniProtKB
    4. left/right axis specification Source: UniProtKB
    5. mitotic nuclear division Source: UniProtKB
    6. negative regulation of transcription, DNA-templated Source: UniProtKB

    Keywords - Molecular functioni

    Chromatin regulator, Developmental protein, Methyltransferase, Transferase

    Keywords - Biological processi

    Cell cycle, Cell division, Mitosis

    Keywords - Ligandi

    Metal-binding, S-adenosyl-L-methionine, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Histone-lysine N-methyltransferase SETDB2 (EC:2.1.1.43)
    Alternative name(s):
    SET domain bifurcated 2
    Gene namesi
    Name:setdb2
    OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
    Taxonomic identifieri8364 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
    ProteomesiUP000008143: Unplaced

    Organism-specific databases

    XenbaseiXB-GENE-1219030. setdb2.

    Subcellular locationi

    Nucleus By similarity. Chromosome By similarity

    GO - Cellular componenti

    1. chromosome Source: UniProtKB-SubCell
    2. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Chromosome, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 697697Histone-lysine N-methyltransferase SETDB2PRO_0000398647Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi8364.ENSXETP00000034176.

    Structurei

    3D structure databases

    ProteinModelPortaliA4IGY9.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini172 – 24271MBDPROSITE-ProRule annotationAdd
    BLAST
    Domaini304 – 37875Pre-SETPROSITE-ProRule annotationAdd
    BLAST
    Domaini381 – 672292SETPROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni391 – 3933S-adenosyl-L-methionine bindingBy similarity
    Regioni629 – 6302S-adenosyl-L-methionine bindingBy similarity

    Domaini

    In the pre-SET domain, Cys residues bind 3 zinc ions that are arranged in a triangular cluster; some of these Cys residues contribute to the binding of two zinc ions within the cluster.By similarity

    Sequence similaritiesi

    Belongs to the class V-like SAM-binding methyltransferase superfamily.PROSITE-ProRule annotation
    Contains 1 MBD (methyl-CpG-binding) domain.PROSITE-ProRule annotation
    Contains 1 pre-SET domain.PROSITE-ProRule annotation
    Contains 1 SET domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG2940.
    HOGENOMiHOG000060314.
    HOVERGENiHBG106688.
    KOiK11421.

    Family and domain databases

    InterProiIPR016177. DNA-bd_dom.
    IPR001739. Methyl_CpG_DNA-bd.
    IPR007728. Pre-SET_dom.
    IPR001214. SET_dom.
    [Graphical view]
    PfamiPF01429. MBD. 1 hit.
    PF05033. Pre-SET. 1 hit.
    PF00856. SET. 1 hit.
    [Graphical view]
    SMARTiSM00317. SET. 1 hit.
    [Graphical view]
    SUPFAMiSSF54171. SSF54171. 1 hit.
    PROSITEiPS50982. MBD. 1 hit.
    PS50867. PRE_SET. 1 hit.
    PS50280. SET. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    A4IGY9-1 [UniParc]FASTAAdd to Basket

    « Hide

    MERSTNARHS TLSSWTRESN TLSVLSKDVS LEDAKEYWKD CQADGKVDWI    50
    FEKLLNKLKI LWQKIKDGSA TNLEYVRAVI LVNEAEQLEE DTETLHTDIQ 100
    KENKVQENTD CAPERKEDSC ADLNSDCETD VSGSECEHED HSTVSPPATG 150
    AVCFGKHLCG PSCLSDINPS LLKKENPLNL PVSCDFQRWR VKTNGSEYPP 200
    HILYKAPCGR SLRDSDEVHS YLTETGCHFL GVDNFSFSTQ VQLESHLSIK 250
    QEIVQDCDIS NDVESVPVSL SNEIDDTRPT NFIYRKTSWP PGYSINNFTD 300
    IFVKCCSCTD GCLDISTCSC LQLTAQAFEK FTDSSLGIGP LGYKHKRLQE 350
    PVPTGLYECN LSCKCDRTLC QNRVVQHGLQ LRLQVFKTDT KGWGVRCLDD 400
    VDNGTFVCIY AGRILIRTAD SSVKTTLEDS VACGNEAKED NGSTSTLMLS 450
    KRKRKPSHSD SEVTVMHLTP YSMRSLGLSV HRQSNTLSLT HLRSGGREIS 500
    LEPFRRPKTK TSMLQKRRRQ LIEEGACTVH NSSEEEGPTP PQSPKQKFNA 550
    GRKIHRNENS DETASGYVSE ESSSSVISGG HPSEKPTCRT KSKLNKMTPH 600
    LSTSPEQTCE EDLHFLDASK EGNVGRFLNH SCCPNLFVQH VFVDTHQKSF 650
    PWVAFFTNSV VKAGTELTWD YNYVIGTAPD QEIQCLCGQQ TCKHKIV 697
    Length:697
    Mass (Da):78,015
    Last modified:May 1, 2007 - v1
    Checksum:i355475082EA9861D
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BC135302 mRNA. Translation: AAI35303.1.
    RefSeqiNP_001096194.1. NM_001102724.2.
    UniGeneiStr.16757.

    Genome annotation databases

    GeneIDi100124743.
    KEGGixtr:100124743.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BC135302 mRNA. Translation: AAI35303.1 .
    RefSeqi NP_001096194.1. NM_001102724.2.
    UniGenei Str.16757.

    3D structure databases

    ProteinModelPortali A4IGY9.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 8364.ENSXETP00000034176.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 100124743.
    KEGGi xtr:100124743.

    Organism-specific databases

    CTDi 83852.
    Xenbasei XB-GENE-1219030. setdb2.

    Phylogenomic databases

    eggNOGi COG2940.
    HOGENOMi HOG000060314.
    HOVERGENi HBG106688.
    KOi K11421.

    Family and domain databases

    InterProi IPR016177. DNA-bd_dom.
    IPR001739. Methyl_CpG_DNA-bd.
    IPR007728. Pre-SET_dom.
    IPR001214. SET_dom.
    [Graphical view ]
    Pfami PF01429. MBD. 1 hit.
    PF05033. Pre-SET. 1 hit.
    PF00856. SET. 1 hit.
    [Graphical view ]
    SMARTi SM00317. SET. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54171. SSF54171. 1 hit.
    PROSITEi PS50982. MBD. 1 hit.
    PS50867. PRE_SET. 1 hit.
    PS50280. SET. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. NIH - Xenopus Gene Collection (XGC) project
      Submitted (MAR-2007) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Embryo.

    Entry informationi

    Entry nameiSETB2_XENTR
    AccessioniPrimary (citable) accession number: A4IGY9
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: October 5, 2010
    Last sequence update: May 1, 2007
    Last modified: October 1, 2014
    This is version 51 of the entry and version 1 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. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3