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O22781

- SUVH2_ARATH

UniProt

O22781 - SUVH2_ARATH

Protein

Histone-lysine N-methyltransferase family member SUVH2

Gene

SUVH2

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 108 (01 Oct 2014)
      Sequence version 1 (01 Jan 1998)
      Previous versions | rss
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    Functioni

    Histone methyltransferase family member. According to PubMed:15775980, it is required for normal methylation of 'Lys-9' and 'Lys-27' of histone H3, 'Lys-20' of H4, and cytosine, but PubMed:19043555 see no significant effect on histone methylation when the gene is mutated. According to PubMed:19043555, the protein does not bind S-adenosyl-L-methionine and lacks methyltransferase activity. Instead, it may function downstream of DRM2 in RNA-directed DNA methylation, binding to methylated DNA and recruiting DNA-directed RNA polymerase V to chromatin (PubMed:24463519). Plays a central role in gene silencing.4 Publications

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi436 – 4361Zinc 1By similarity
    Metal bindingi436 – 4361Zinc 2By similarity
    Metal bindingi438 – 4381Zinc 1By similarity
    Metal bindingi442 – 4421Zinc 1By similarity
    Metal bindingi442 – 4421Zinc 3By similarity
    Metal bindingi446 – 4461Zinc 1By similarity
    Metal bindingi448 – 4481Zinc 2By similarity
    Metal bindingi474 – 4741Zinc 2By similarity
    Metal bindingi474 – 4741Zinc 3By similarity
    Metal bindingi478 – 4781Zinc 2By similarity
    Metal bindingi480 – 4801Zinc 3By similarity
    Metal bindingi484 – 4841Zinc 3By similarity

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. histone-lysine N-methyltransferase activity Source: InterPro
    3. histone methyltransferase activity Source: TAIR
    4. zinc ion binding Source: InterPro

    GO - Biological processi

    1. histone methylation Source: TAIR
    2. regulation of gene expression, epigenetic Source: TAIR

    Keywords - Molecular functioni

    Chromatin regulator

    Keywords - Ligandi

    DNA-binding, Metal-binding, Zinc

    Enzyme and pathway databases

    BioCyciARA:AT2G33290-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Histone-lysine N-methyltransferase family member SUVH2
    Alternative name(s):
    Cytosine-HMTase 2
    H3-K27-HMTase 2
    H4-K20-HMTase 2
    Histone H3-K9 methyltransferase 2
    Short name:
    H3-K9-HMTase 2
    Protein SET DOMAIN GROUP 3
    Suppressor of variegation 3-9 homolog protein 2
    Short name:
    Su(var)3-9 homolog protein 2
    Gene namesi
    Name:SUVH2
    Synonyms:SDG3, SET3
    Ordered Locus Names:At2g33290
    ORF Names:F4P9.6
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 2

    Organism-specific databases

    TAIRiAT2G33290.

    Subcellular locationi

    Nucleus. Chromosomecentromere
    Note: Associates with centromeric constitutive heterochromatin.

    GO - Cellular componenti

    1. chromosome, centromeric region Source: UniProtKB-SubCell
    2. nuclear heterochromatin Source: TAIR
    3. nucleus Source: TAIR

    Keywords - Cellular componenti

    Centromere, Chromosome, Nucleus

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi143 – 1431E → D in 5-1; ectopic nuclear localization. 1 Publication
    Mutagenesisi351 – 3511R → K in 5-2; loss of 5-methylcytosine, H3K9 dimethylation and H4K20 monomethylation. 1 Publication
    Mutagenesisi385 – 3851V → A in 5-3; loss of 5-methylcytosine, H3K9 dimethylation and H4K20 monomethylation. 1 Publication
    Mutagenesisi411 – 4111R → I in 5-4; loss of H3K9 and H4K20 methylation. 1 Publication
    Mutagenesisi584 – 5841V → G in 5-5; loss of H3K9 and H4K20 methylation. 1 Publication
    Mutagenesisi620 – 6201M → T in 5-6; loss of H3K9 and H4K20 methylation; when associated with T-630. 1 Publication
    Mutagenesisi630 – 6301L → V in 5-6; loss of H3K9 and H4K20 methylation; when associated with V-620. 1 Publication
    Mutagenesisi645 – 6451G → S in 5-7; loss of H3K9 and H4K20 methylation. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 651651Histone-lysine N-methyltransferase family member SUVH2PRO_0000186073Add
    BLAST

    Proteomic databases

    PRIDEiO22781.

    Expressioni

    Tissue specificityi

    Expressed at low levels in leaves stems and flowers.1 Publication

    Gene expression databases

    GenevestigatoriO22781.

    Interactioni

    Subunit structurei

    Interacts with DNA-directed RNA polymerase V subunit NRPE1.1 Publication

    Protein-protein interaction databases

    STRINGi3702.AT2G33290.1-P.

    Structurei

    3D structure databases

    ProteinModelPortaliO22781.
    SMRiO22781. Positions 142-638.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini202 – 358157YDGPROSITE-ProRule annotationAdd
    BLAST
    Domaini434 – 49259Pre-SETPROSITE-ProRule annotationAdd
    BLAST
    Domaini495 – 638144SETPROSITE-ProRule annotationAdd
    BLAST

    Domaini

    Although both SET and pre-SET domains are present, the absence of the post-SET domain may explain the lack of methyltransferase activity. Besides, the Cys residues in the SET domain that normally bind a zinc ion are not conserved.
    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 pre-SET domain.PROSITE-ProRule annotation
    Contains 1 SET domain.PROSITE-ProRule annotation
    Contains 1 YDG domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG3440.
    HOGENOMiHOG000238382.
    InParanoidiO22781.
    KOiK11420.
    OMAiVGKVYFY.
    PhylomeDBiO22781.

    Family and domain databases

    Gene3Di2.30.280.10. 1 hit.
    InterProiIPR025794. Hist-Lys_N-MeTrfase_plant.
    IPR007728. Pre-SET_dom.
    IPR003606. Pre-SET_Zn-bd_sub.
    IPR015947. PUA-like_domain.
    IPR001214. SET_dom.
    IPR003105. SRA_YDG.
    [Graphical view]
    PfamiPF05033. Pre-SET. 1 hit.
    PF02182. SAD_SRA. 1 hit.
    PF00856. SET. 1 hit.
    [Graphical view]
    SMARTiSM00468. PreSET. 1 hit.
    SM00317. SET. 1 hit.
    SM00466. SRA. 1 hit.
    [Graphical view]
    SUPFAMiSSF88697. SSF88697. 1 hit.
    PROSITEiPS50867. PRE_SET. 1 hit.
    PS51575. SAM_MT43_SUVAR39_2. 1 hit.
    PS50280. SET. 1 hit.
    PS51015. YDG. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O22781-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSTLLPFPDL NLMPDSQSST AGTTAGDTVV TGKLEVKSEP IEEWQTPPSS    50
    TSDQSANTDL IAEFIRISEL FRSAFKPLQV KGLDGVSVYG LDSGAIVAVP 100
    EKENRELIEP PPGFKDNRVS TVVVSPKFER PRELARIAIL GHEQRKELRQ 150
    VMKRTRMTYE SLRIHLMAES MKNHVLGQGR RRRSDMAAAY IMRDRGLWLN 200
    YDKHIVGPVT GVEVGDIFFY RMELCVLGLH GQTQAGIDCL TAERSATGEP 250
    IATSIVVSGG YEDDEDTGDV LVYTGHGGQD HQHKQCDNQR LVGGNLGMER 300
    SMHYGIEVRV IRGIKYENSI SSKVYVYDGL YKIVDWWFAV GKSGFGVFKF 350
    RLVRIEGQPM MGSAVMRFAQ TLRNKPSMVR PTGYVSFDLS NKKENVPVFL 400
    YNDVDGDQEP RHYEYIAKAV FPPGIFGQGG ISRTGCECKL SCTDDCLCAR 450
    KNGGEFAYDD NGHLLKGKHV VFECGEFCTC GPSCKSRVTQ KGLRNRLEVF 500
    RSKETGWGVR TLDLIEAGAF ICEYAGVVVT RLQAEILSMN GDVMVYPGRF 550
    TDQWRNWGDL SQVYPDFVRP NYPSLPPLDF SMDVSRMRNV ACYISHSKEP 600
    NVMVQFVLHD HNHLMFPRVM LFALENISPL AELSLDYGLA DEVNGKLAIC 650
    N 651
    Length:651
    Mass (Da):72,848
    Last modified:January 1, 1998 - v1
    Checksum:i412AD76C8869ACF9
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF344445 mRNA. Translation: AAK28967.1.
    AC002332 Genomic DNA. Translation: AAB80647.1.
    CP002685 Genomic DNA. Translation: AEC08810.1.
    PIRiF84743.
    RefSeqiNP_180887.1. NM_128889.2.
    UniGeneiAt.12115.

    Genome annotation databases

    EnsemblPlantsiAT2G33290.1; AT2G33290.1; AT2G33290.
    GeneIDi817892.
    KEGGiath:AT2G33290.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF344445 mRNA. Translation: AAK28967.1 .
    AC002332 Genomic DNA. Translation: AAB80647.1 .
    CP002685 Genomic DNA. Translation: AEC08810.1 .
    PIRi F84743.
    RefSeqi NP_180887.1. NM_128889.2.
    UniGenei At.12115.

    3D structure databases

    ProteinModelPortali O22781.
    SMRi O22781. Positions 142-638.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 3702.AT2G33290.1-P.

    Proteomic databases

    PRIDEi O22781.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT2G33290.1 ; AT2G33290.1 ; AT2G33290 .
    GeneIDi 817892.
    KEGGi ath:AT2G33290.

    Organism-specific databases

    TAIRi AT2G33290.

    Phylogenomic databases

    eggNOGi COG3440.
    HOGENOMi HOG000238382.
    InParanoidi O22781.
    KOi K11420.
    OMAi VGKVYFY.
    PhylomeDBi O22781.

    Enzyme and pathway databases

    BioCyci ARA:AT2G33290-MONOMER.

    Gene expression databases

    Genevestigatori O22781.

    Family and domain databases

    Gene3Di 2.30.280.10. 1 hit.
    InterProi IPR025794. Hist-Lys_N-MeTrfase_plant.
    IPR007728. Pre-SET_dom.
    IPR003606. Pre-SET_Zn-bd_sub.
    IPR015947. PUA-like_domain.
    IPR001214. SET_dom.
    IPR003105. SRA_YDG.
    [Graphical view ]
    Pfami PF05033. Pre-SET. 1 hit.
    PF02182. SAD_SRA. 1 hit.
    PF00856. SET. 1 hit.
    [Graphical view ]
    SMARTi SM00468. PreSET. 1 hit.
    SM00317. SET. 1 hit.
    SM00466. SRA. 1 hit.
    [Graphical view ]
    SUPFAMi SSF88697. SSF88697. 1 hit.
    PROSITEi PS50867. PRE_SET. 1 hit.
    PS51575. SAM_MT43_SUVAR39_2. 1 hit.
    PS50280. SET. 1 hit.
    PS51015. YDG. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The Arabidopsis thaliana genome contains at least 29 active genes encoding SET domain proteins that can be assigned to four evolutionarily conserved classes."
      Baumbusch L.O., Thorstensen T., Krauss V., Fischer A., Naumann K., Assalkhou R., Schulz I., Reuter G., Aalen R.B.
      Nucleic Acids Res. 29:4319-4333(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], SUBCELLULAR LOCATION, NOMENCLATURE, TISSUE SPECIFICITY.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Columbia.
    3. The Arabidopsis Information Resource (TAIR)
      Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
      Cited for: GENOME REANNOTATION.
      Strain: cv. Columbia.
    4. "Pivotal role of AtSUVH2 in heterochromatic histone methylation and gene silencing in Arabidopsis."
      Naumann K., Fischer A., Hofmann I., Krauss V., Phalke S., Irmler K., Hause G., Aurich A.-C., Dorn R., Jenuwein T., Reuter G.
      EMBO J. 24:1418-1429(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, SUBCELLULAR LOCATION, MUTAGENESIS OF GLU-143; ARG-351; VAL-385; ARG-411; VAL-584; MET-620; LEU-630 AND GLY-645.
    5. "Heterochromatin proteins and the control of heterochromatic gene silencing in Arabidopsis."
      Fischer A., Hofmann I., Naumann K., Reuter G.
      J. Plant Physiol. 163:358-368(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, GENE FAMILY.
    6. "SRA-domain proteins required for DRM2-mediated de novo DNA methylation."
      Johnson L.M., Law J.A., Khattar A., Henderson I.R., Jacobsen S.E.
      PLoS Genet. 4:E1000280-E1000280(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, DNA-BINDING, LACK OF METHYLTRANSFERASE ACTIVITY, LACK OF S-ADENOSYL-L-METHIONINE BINDING.
    7. "SRA- and SET-domain-containing proteins link RNA polymerase V occupancy to DNA methylation."
      Johnson L.M., Du J., Hale C.J., Bischof S., Feng S., Chodavarapu R.K., Zhong X., Marson G., Pellegrini M., Segal D.J., Patel D.J., Jacobsen S.E.
      Nature 507:124-128(2014) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH NRPE1.

    Entry informationi

    Entry nameiSUVH2_ARATH
    AccessioniPrimary (citable) accession number: O22781
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 9, 2003
    Last sequence update: January 1, 1998
    Last modified: October 1, 2014
    This is version 108 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3