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O22781

- SUVH2_ARATH

UniProt

O22781 - SUVH2_ARATH

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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

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
Complete GO annotation...

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-KW
  2. nuclear heterochromatin Source: TAIR
  3. nucleus Source: TAIR
Complete GO annotation...

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 204-359, 387-637.
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

        10         20         30         40         50
MSTLLPFPDL NLMPDSQSST AGTTAGDTVV TGKLEVKSEP IEEWQTPPSS
60 70 80 90 100
TSDQSANTDL IAEFIRISEL FRSAFKPLQV KGLDGVSVYG LDSGAIVAVP
110 120 130 140 150
EKENRELIEP PPGFKDNRVS TVVVSPKFER PRELARIAIL GHEQRKELRQ
160 170 180 190 200
VMKRTRMTYE SLRIHLMAES MKNHVLGQGR RRRSDMAAAY IMRDRGLWLN
210 220 230 240 250
YDKHIVGPVT GVEVGDIFFY RMELCVLGLH GQTQAGIDCL TAERSATGEP
260 270 280 290 300
IATSIVVSGG YEDDEDTGDV LVYTGHGGQD HQHKQCDNQR LVGGNLGMER
310 320 330 340 350
SMHYGIEVRV IRGIKYENSI SSKVYVYDGL YKIVDWWFAV GKSGFGVFKF
360 370 380 390 400
RLVRIEGQPM MGSAVMRFAQ TLRNKPSMVR PTGYVSFDLS NKKENVPVFL
410 420 430 440 450
YNDVDGDQEP RHYEYIAKAV FPPGIFGQGG ISRTGCECKL SCTDDCLCAR
460 470 480 490 500
KNGGEFAYDD NGHLLKGKHV VFECGEFCTC GPSCKSRVTQ KGLRNRLEVF
510 520 530 540 550
RSKETGWGVR TLDLIEAGAF ICEYAGVVVT RLQAEILSMN GDVMVYPGRF
560 570 580 590 600
TDQWRNWGDL SQVYPDFVRP NYPSLPPLDF SMDVSRMRNV ACYISHSKEP
610 620 630 640 650
NVMVQFVLHD HNHLMFPRVM LFALENISPL AELSLDYGLA DEVNGKLAIC

N
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 204-359, 387-637.
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

« Hide 'large scale' publications
  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 29, 2014
This is version 109 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