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Q8C267

- SETB2_MOUSE

UniProt

Q8C267 - SETB2_MOUSE

Protein

Histone-lysine N-methyltransferase SETDB2

Gene

Setdb2

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 91 (01 Oct 2014)
      Sequence version 2 (03 Apr 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 is a specific tag for epigenetic transcriptional repression that recruits 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 bindingi296 – 2961Zinc 1By similarity
    Metal bindingi296 – 2961Zinc 2By similarity
    Metal bindingi298 – 2981Zinc 1By similarity
    Metal bindingi302 – 3021Zinc 1By similarity
    Metal bindingi302 – 3021Zinc 3By similarity
    Metal bindingi308 – 3081Zinc 1By similarity
    Metal bindingi310 – 3101Zinc 2By similarity
    Metal bindingi348 – 3481Zinc 2By similarity
    Metal bindingi348 – 3481Zinc 3By similarity
    Metal bindingi352 – 3521Zinc 2By similarity
    Metal bindingi354 – 3541Zinc 3By similarity
    Metal bindingi359 – 3591Zinc 3By similarity
    Binding sitei642 – 6421S-adenosyl-L-methioninePROSITE-ProRule annotation
    Metal bindingi648 – 6481Zinc 4By similarity
    Metal bindingi701 – 7011Zinc 4By similarity
    Metal bindingi703 – 7031Zinc 4By similarity
    Metal bindingi708 – 7081Zinc 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
    Synonyms:Gm293
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 14

    Organism-specific databases

    MGIiMGI:2685139. 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 – 713713Histone-lysine N-methyltransferase SETDB2PRO_0000281824Add
    BLAST

    Proteomic databases

    PaxDbiQ8C267.
    PRIDEiQ8C267.

    PTM databases

    PhosphoSiteiQ8C267.

    Expressioni

    Gene expression databases

    ArrayExpressiQ8C267.
    BgeeiQ8C267.
    CleanExiMM_SETDB2.
    GenevestigatoriQ8C267.

    Interactioni

    Protein-protein interaction databases

    STRINGi10090.ENSMUSP00000093450.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8C267.
    SMRiQ8C267. Positions 247-414, 629-709.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini161 – 23373MBDPROSITE-ProRule annotationAdd
    BLAST
    Domaini294 – 36774Pre-SETPROSITE-ProRule annotationAdd
    BLAST
    Domaini370 – 688319SETPROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni380 – 3823S-adenosyl-L-methionine bindingBy similarity
    Regioni645 – 6462S-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.
    GeneTreeiENSGT00750000117355.
    HOGENOMiHOG000060314.
    HOVERGENiHBG106688.
    InParanoidiQ8C267.
    KOiK11421.
    OMAiKCHFQRR.
    PhylomeDBiQ8C267.
    TreeFamiTF106411.

    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]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q8C267-1) [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

    MEEKNGDAKT FWMELQDDGK VDLMFEKTQN VLHSLKQKIK DGSATNGDYV    50
    QAMNLVNEAT LSNTQTLEKG MFITYSNPEV NTHRSNHTPV TQSEQENKSS 100
    AVPSASCDNS CPKGCTIPSP GKKVFLPVKN KADNLVKKEA PLHISFHRHI 150
    CSRTCLMETP LSLKGENPLQ LPIRCHFQRR HAKTNSHSSA LHVNYKTPCG 200
    RNLRNMEEVF HYLLETECNF LFTDNFSFNT YVQLTRNHPK QNEVVSDVDI 250
    SNGVESVSIP FCNEIDNSKL PRFKYRNTVW PRIYHLNFSN MFSDSCDCSE 300
    GCIDIKKCAC LQLTAKNAKA CPLSSDGECA GYKYKRLQRL IPTGIYECNL 350
    LCKCNKQMCQ NRVIQHGVRV RLQVFKSEKK GWGVRCLDDI DKGTFVCIYS 400
    GRLLRRATPE KTNIGENGRE QQHIVKNSFS KKRKLEVVCS DCDAHCDSPK 450
    AEDCPPKLSG DLKEPAVEMN HRNISRTQHH SVIRRTKSKT TVFHYSEKNM 500
    GFVCSDSAAP EDKNGFKPAQ EHVNSEARRA HEDLSSNPAG DSEDTQLTES 550
    DVIDITASRE DSAPAYRCKH ATIVDRKDTK QVLEVPGKKS QEEEPAASQS 600
    QQALCDEELP SERTKIPSAS LMQLSKESLF LLDASKEGNV GRFLNHSCCP 650
    NLWVQNVFVE THDRNFPLVA FFTNRYVKAR TELTWDYGYE AGATPAKEIL 700
    CQCGFNKCRK KLI 713
    Length:713
    Mass (Da):80,636
    Last modified:April 3, 2007 - v2
    Checksum:iC4E750F01ED4231A
    GO
    Isoform 2 (identifier: Q8C267-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         70-86: GMFITYSNPEVNTHRSN → D
         119-156: SPGKKVFLPV...HRHICSRTCL → YVYVIRVSAP...NSRCLCLLVN
         157-713: Missing.

    Note: No experimental confirmation available.

    Show »
    Length:140
    Mass (Da):15,493
    Checksum:i37E19B746B1A9205
    GO

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei70 – 8617GMFIT…THRSN → D in isoform 2. 1 PublicationVSP_024063Add
    BLAST
    Alternative sequencei119 – 15638SPGKK…SRTCL → YVYVIRVSAPSVCCLLNIPK SLTPFIKFNSRCLCLLVN in isoform 2. 1 PublicationVSP_024064Add
    BLAST
    Alternative sequencei157 – 713557Missing in isoform 2. 1 PublicationVSP_024065Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK089197 mRNA. Translation: BAC40789.1.
    AC114007 Genomic DNA. No translation available.
    CCDSiCCDS36939.1. [Q8C267-1]
    RefSeqiNP_001074493.1. NM_001081024.1. [Q8C267-1]
    UniGeneiMm.205022.

    Genome annotation databases

    EnsembliENSMUST00000095775; ENSMUSP00000093450; ENSMUSG00000071350. [Q8C267-1]
    ENSMUST00000111253; ENSMUSP00000106884; ENSMUSG00000071350. [Q8C267-2]
    GeneIDi239122.
    KEGGimmu:239122.
    UCSCiuc007uei.1. mouse. [Q8C267-1]
    uc007uej.1. mouse. [Q8C267-2]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK089197 mRNA. Translation: BAC40789.1 .
    AC114007 Genomic DNA. No translation available.
    CCDSi CCDS36939.1. [Q8C267-1 ]
    RefSeqi NP_001074493.1. NM_001081024.1. [Q8C267-1 ]
    UniGenei Mm.205022.

    3D structure databases

    ProteinModelPortali Q8C267.
    SMRi Q8C267. Positions 247-414, 629-709.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 10090.ENSMUSP00000093450.

    PTM databases

    PhosphoSitei Q8C267.

    Proteomic databases

    PaxDbi Q8C267.
    PRIDEi Q8C267.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000095775 ; ENSMUSP00000093450 ; ENSMUSG00000071350 . [Q8C267-1 ]
    ENSMUST00000111253 ; ENSMUSP00000106884 ; ENSMUSG00000071350 . [Q8C267-2 ]
    GeneIDi 239122.
    KEGGi mmu:239122.
    UCSCi uc007uei.1. mouse. [Q8C267-1 ]
    uc007uej.1. mouse. [Q8C267-2 ]

    Organism-specific databases

    CTDi 83852.
    MGIi MGI:2685139. Setdb2.

    Phylogenomic databases

    eggNOGi COG2940.
    GeneTreei ENSGT00750000117355.
    HOGENOMi HOG000060314.
    HOVERGENi HBG106688.
    InParanoidi Q8C267.
    KOi K11421.
    OMAi KCHFQRR.
    PhylomeDBi Q8C267.
    TreeFami TF106411.

    Miscellaneous databases

    NextBioi 383999.
    PROi Q8C267.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi Q8C267.
    Bgeei Q8C267.
    CleanExi MM_SETDB2.
    Genevestigatori Q8C267.

    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. "The transcriptional landscape of the mammalian genome."
      Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
      , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
      Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
      Strain: NOD.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].

    Entry informationi

    Entry nameiSETB2_MOUSE
    AccessioniPrimary (citable) accession number: Q8C267
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 3, 2007
    Last sequence update: April 3, 2007
    Last modified: October 1, 2014
    This is version 91 of the entry and version 2 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