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Q6DGD3

- SV91A_DANRE

UniProt

Q6DGD3 - SV91A_DANRE

Protein

Histone-lysine N-methyltransferase SUV39H1-A

Gene

suv39h1a

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 81 (01 Oct 2014)
      Sequence version 2 (14 Oct 2008)
      Previous versions | rss
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    Functioni

    Histone methyltransferase that specifically trimethylates 'Lys-9' of histone H3 using monomethylated H3 'Lys-9' as substrate. H3 'Lys-9' trimethylation represents a specific tag for epigenetic transcriptional repression by recruiting HP1 (CBX1, CBX3 and/or CBX5) proteins to methylated histones. Mainly functions in heterochromatin regions, thereby playing a central role in the establishment of constitutive heterochromatin at pericentric and telomere regions. H3 'Lys-9' trimethylation is also required to direct DNA methylation at pericentric repeats. SUV39H1 is targeted to histone H3 via its interaction with RB1 and is involved in many processes, such as regulation of organ-specific terminal differentiation during development.1 Publication

    Catalytic activityi

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

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi180 – 1801Zinc 1By similarity
    Metal bindingi180 – 1801Zinc 2By similarity
    Metal bindingi182 – 1821Zinc 1By similarity
    Metal bindingi185 – 1851Zinc 1By similarity
    Metal bindingi185 – 1851Zinc 3By similarity
    Metal bindingi193 – 1931Zinc 1By similarity
    Metal bindingi194 – 1941Zinc 1By similarity
    Metal bindingi194 – 1941Zinc 2By similarity
    Metal bindingi221 – 2211Zinc 2By similarity
    Metal bindingi221 – 2211Zinc 3By similarity
    Metal bindingi225 – 2251Zinc 2By similarity
    Metal bindingi227 – 2271Zinc 3By similarity
    Metal bindingi231 – 2311Zinc 3By similarity
    Binding sitei296 – 2961S-adenosyl-L-methioninePROSITE-ProRule annotation
    Metal bindingi325 – 3251Zinc 4By similarity
    Metal bindingi399 – 3991Zinc 4By similarity
    Metal bindingi401 – 4011Zinc 4By similarity
    Metal bindingi406 – 4061Zinc 4By similarity

    GO - Molecular functioni

    1. histone-lysine N-methyltransferase activity Source: UniProtKB-EC
    2. zinc ion binding Source: InterPro

    GO - Biological processi

    1. cell cycle Source: UniProtKB-KW
    2. cell differentiation Source: UniProtKB-KW
    3. exocrine pancreas development Source: ZFIN
    4. histone H3-K9 methylation Source: ZFIN
    5. regulation of transcription, DNA-templated Source: UniProtKB-KW
    6. retina morphogenesis in camera-type eye Source: ZFIN
    7. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Chromatin regulator, Methyltransferase, Repressor, Transferase

    Keywords - Biological processi

    Cell cycle, Differentiation, Transcription, Transcription regulation

    Keywords - Ligandi

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

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Histone-lysine N-methyltransferase SUV39H1-A (EC:2.1.1.43)
    Alternative name(s):
    Suppressor of variegation 3-9 homolog 1-A
    Short name:
    Su(var)3-9 homolog 1-A
    Gene namesi
    Name:suv39h1a
    Synonyms:suv39h1
    ORF Names:si:dkey-16n15.2, zgc:101027
    OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
    Taxonomic identifieri7955 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
    ProteomesiUP000000437: Chromosome 8

    Organism-specific databases

    ZFINiZDB-GENE-040801-111. suv39h1a.

    Subcellular locationi

    Nucleus By similarity. Chromosomecentromere By similarity
    Note: Associates with centromeric constitutive heterochromatin.By similarity

    GO - Cellular componenti

    1. chromosome, centromeric region Source: UniProtKB-SubCell
    2. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Centromere, Chromosome, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 411411Histone-lysine N-methyltransferase SUV39H1-APRO_0000281811Add
    BLAST

    Expressioni

    Tissue specificityi

    Expressed ubuitiously.1 Publication

    Developmental stagei

    Expressed both maternally and zygotically.1 Publication

    Gene expression databases

    BgeeiQ6DGD3.

    Structurei

    3D structure databases

    ProteinModelPortaliQ6DGD3.
    SMRiQ6DGD3. Positions 115-410.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini43 – 10159ChromoPROSITE-ProRule annotationAdd
    BLAST
    Domaini178 – 23962Pre-SETPROSITE-ProRule annotationAdd
    BLAST
    Domaini242 – 365124SETPROSITE-ProRule annotationAdd
    BLAST
    Domaini395 – 41117Post-SETPROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni253 – 2553S-adenosyl-L-methionine bindingBy similarity
    Regioni322 – 3232S-adenosyl-L-methionine bindingBy similarity

    Domaini

    Although the SET domain contains the active site of enzymatic activity, both pre-SET and post-SET domains are required for methyltransferase activity. The SET domain also participates to stable binding to heterochromatin By similarity.By similarity
    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. Histone-lysine methyltransferase family. Suvar3-9 subfamily.PROSITE-ProRule annotation
    Contains 1 chromo domain.PROSITE-ProRule annotation
    Contains 1 post-SET domain.PROSITE-ProRule annotation
    Contains 1 pre-SET domain.PROSITE-ProRule annotation
    Contains 1 SET domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG2940.
    GeneTreeiENSGT00750000117355.
    HOGENOMiHOG000231244.
    HOVERGENiHBG055621.
    InParanoidiQ6DGD3.
    KOiK11419.
    OMAiWEDEINE.
    OrthoDBiEOG7RJPR0.
    PhylomeDBiQ6DGD3.
    TreeFamiTF106452.

    Family and domain databases

    InterProiIPR023780. Chromo_domain.
    IPR000953. Chromo_domain/shadow.
    IPR016197. Chromodomain-like.
    IPR023779. Chromodomain_CS.
    IPR011381. Histone_H3-K9_MeTrfase.
    IPR003616. Post-SET_dom.
    IPR007728. Pre-SET_dom.
    IPR001214. SET_dom.
    [Graphical view]
    PfamiPF00385. Chromo. 1 hit.
    PF05033. Pre-SET. 1 hit.
    PF00856. SET. 1 hit.
    [Graphical view]
    PIRSFiPIRSF009343. SUV39_SET. 1 hit.
    SMARTiSM00298. CHROMO. 1 hit.
    SM00508. PostSET. 1 hit.
    SM00317. SET. 1 hit.
    [Graphical view]
    SUPFAMiSSF54160. SSF54160. 1 hit.
    PROSITEiPS00598. CHROMO_1. 1 hit.
    PS50013. CHROMO_2. 1 hit.
    PS50868. POST_SET. 1 hit.
    PS50867. PRE_SET. 1 hit.
    PS51579. SAM_MT43_SUVAR39_3. 1 hit.
    PS50280. SET. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q6DGD3-1 [UniParc]FASTAAdd to Basket

    « Hide

    MARDLKDCRV PCKLLLEDLQ ALCRRKKLVC KQLSVTKNNF NDYEVEYLCN    50
    YKKHKGREFF LVKWKGYEES ENTWEPLKNL KCPILLHQFR KDMKAALLQA 100
    NEPLDSASLS GPIISFLRQK ATQRIRLKKW EDLMNQTCWH KGRIFVSNEV 150
    DMDGPPKNFT YINENKLGKG VDMNAVIVGC ECEDCVSQPV DGCCPGLLKF 200
    RRAYNESRRV KVMPGVPIYE CNSKCRCGPD CANRVVQRGI QYDLCIFKTD 250
    NGRGWGVRTL QRINKNSFVM EYLGEIITTD EAEQRGVLYD KQGVTYLFDL 300
    DYVDDVYTID AAHYGNISHF VNHSCDPNLQ VYNVFIDNLD ERLPRIALFA 350
    KRGIKAGEEL TFDYKMTVDP VDAESTKMDL DFSRAGIEGS PIKRVHMECK 400
    CGVRNCRKYL F 411
    Length:411
    Mass (Da):47,471
    Last modified:October 14, 2008 - v2
    Checksum:i3C86D47CEC18C150
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti139 – 1391W → R in AAH76417. 1 PublicationCurated
    Sequence conflicti152 – 1521M → L in AAH76417. 1 PublicationCurated
    Sequence conflicti183 – 1831E → A in AAH76417. 1 PublicationCurated
    Sequence conflicti284 – 2841Q → R in AAH76417. 1 PublicationCurated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BX005340 Genomic DNA. Translation: CAQ14784.1.
    BC076417 mRNA. Translation: AAH76417.1.
    DQ840140 mRNA. Translation: ABI34869.1.
    RefSeqiNP_001003592.1. NM_001003592.1.
    UniGeneiDr.80633.

    Genome annotation databases

    EnsembliENSDART00000038955; ENSDARP00000034818; ENSDARG00000026799.
    GeneIDi445198.
    KEGGidre:445198.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BX005340 Genomic DNA. Translation: CAQ14784.1 .
    BC076417 mRNA. Translation: AAH76417.1 .
    DQ840140 mRNA. Translation: ABI34869.1 .
    RefSeqi NP_001003592.1. NM_001003592.1.
    UniGenei Dr.80633.

    3D structure databases

    ProteinModelPortali Q6DGD3.
    SMRi Q6DGD3. Positions 115-410.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSDART00000038955 ; ENSDARP00000034818 ; ENSDARG00000026799 .
    GeneIDi 445198.
    KEGGi dre:445198.

    Organism-specific databases

    CTDi 445198.
    ZFINi ZDB-GENE-040801-111. suv39h1a.

    Phylogenomic databases

    eggNOGi COG2940.
    GeneTreei ENSGT00750000117355.
    HOGENOMi HOG000231244.
    HOVERGENi HBG055621.
    InParanoidi Q6DGD3.
    KOi K11419.
    OMAi WEDEINE.
    OrthoDBi EOG7RJPR0.
    PhylomeDBi Q6DGD3.
    TreeFami TF106452.

    Miscellaneous databases

    NextBioi 20831958.

    Gene expression databases

    Bgeei Q6DGD3.

    Family and domain databases

    InterProi IPR023780. Chromo_domain.
    IPR000953. Chromo_domain/shadow.
    IPR016197. Chromodomain-like.
    IPR023779. Chromodomain_CS.
    IPR011381. Histone_H3-K9_MeTrfase.
    IPR003616. Post-SET_dom.
    IPR007728. Pre-SET_dom.
    IPR001214. SET_dom.
    [Graphical view ]
    Pfami PF00385. Chromo. 1 hit.
    PF05033. Pre-SET. 1 hit.
    PF00856. SET. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF009343. SUV39_SET. 1 hit.
    SMARTi SM00298. CHROMO. 1 hit.
    SM00508. PostSET. 1 hit.
    SM00317. SET. 1 hit.
    [Graphical view ]
    SUPFAMi SSF54160. SSF54160. 1 hit.
    PROSITEi PS00598. CHROMO_1. 1 hit.
    PS50013. CHROMO_2. 1 hit.
    PS50868. POST_SET. 1 hit.
    PS50867. PRE_SET. 1 hit.
    PS51579. SAM_MT43_SUVAR39_3. 1 hit.
    PS50280. SET. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The zebrafish reference genome sequence and its relationship to the human genome."
      Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M., Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I., Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.
      , White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y., Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B., Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S., Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M., Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J., Clee C., Oliver K., Clark R., Riddle C., Eliott D., Threadgold G., Harden G., Ware D., Mortimer B., Kerry G., Heath P., Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S., Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J., Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J., Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D., McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S., Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E., Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A., Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P., Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J., Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E., Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C., Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C., Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M., Oberlander M., Rudolph-Geiger S., Teucke M., Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M., Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M., de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C., Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.
      Nature 496:498-503(2013) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Tuebingen.
    2. NIH - Zebrafish Gene Collection (ZGC) project
      Submitted (JUL-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Tissue: Embryo.
    3. "Genome-wide survey and developmental expression mapping of zebrafish SET domain-containing genes."
      Sun X.-J., Xu P.-F., Zhou T., Hu M., Fu C.-T., Zhang Y., Jin Y., Chen Y., Chen S.-J., Huang Q.-H., Liu T.X., Chen Z.
      PLoS ONE 3:E1499-E1499(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 214-409, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
    4. "Zebra fish Dnmt1 and Suv39h1 regulate organ-specific terminal differentiation during development."
      Rai K., Nadauld L.D., Chidester S., Manos E.J., James S.R., Karpf A.R., Cairns B.R., Jones D.A.
      Mol. Cell. Biol. 26:7077-7085(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.

    Entry informationi

    Entry nameiSV91A_DANRE
    AccessioniPrimary (citable) accession number: Q6DGD3
    Secondary accession number(s): A5XBP4, B0S580
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 3, 2007
    Last sequence update: October 14, 2008
    Last modified: October 1, 2014
    This is version 81 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. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3