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Q9T0G7

- SUVH9_ARATH

UniProt

Q9T0G7 - SUVH9_ARATH

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Protein

Histone-lysine N-methyltransferase family member SUVH9

Gene

SUVH9

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli

Functioni

Histone methyltransferase family member that plays a role in gene silencing. 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).2 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi434 – 4341Zinc 1
Metal bindingi434 – 4341Zinc 2
Metal bindingi436 – 4361Zinc 1
Metal bindingi440 – 4401Zinc 1
Metal bindingi440 – 4401Zinc 3
Metal bindingi444 – 4441Zinc 1
Metal bindingi446 – 4461Zinc 2
Metal bindingi472 – 4721Zinc 2
Metal bindingi472 – 4721Zinc 3
Metal bindingi476 – 4761Zinc 2
Metal bindingi478 – 4781Zinc 3
Metal bindingi482 – 4821Zinc 3

GO - Molecular functioni

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

GO - Biological processi

  1. DNA mediated transformation Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator

Keywords - Ligandi

DNA-binding, Metal-binding, Zinc

Enzyme and pathway databases

BioCyciARA:AT4G13460-MONOMER.
ARA:GQT-2273-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Histone-lysine N-methyltransferase family member SUVH9
Alternative name(s):
Histone H3-K9 methyltransferase 9
Short name:
H3-K9-HMTase 9
Protein SET DOMAIN GROUP 22
Suppressor of variegation 3-9 homolog protein 9
Short name:
Su(var)3-9 homolog protein 9
Gene namesi
Name:SUVH9
Synonyms:SDG22, SET22
Ordered Locus Names:At4g13460
ORF Names:T6G15.10
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 4

Organism-specific databases

TAIRiAT4G13460.

Subcellular locationi

Nucleus 1 Publication. Chromosomecentromere By similarity
Note: Associates with centromeric constitutive heterochromatin.Curated

GO - Cellular componenti

  1. chromosome, centromeric region Source: UniProtKB-KW
  2. nucleus Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Centromere, Chromosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 650650Histone-lysine N-methyltransferase family member SUVH9PRO_0000186080Add
BLAST

Proteomic databases

PaxDbiQ9T0G7.
PRIDEiQ9T0G7.

Expressioni

Gene expression databases

ExpressionAtlasiQ9T0G7. baseline and differential.
GenevestigatoriQ9T0G7.

Structurei

Secondary structure

1
650
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi140 – 16728Combined sources
Helixi178 – 19215Combined sources
Beta strandi215 – 2173Combined sources
Helixi219 – 2246Combined sources
Beta strandi234 – 2385Combined sources
Beta strandi242 – 2465Combined sources
Beta strandi249 – 2568Combined sources
Beta strandi268 – 2725Combined sources
Helixi291 – 30111Combined sources
Beta strandi306 – 3127Combined sources
Beta strandi322 – 33817Combined sources
Beta strandi344 – 3529Combined sources
Helixi360 – 37213Combined sources
Helixi374 – 3763Combined sources
Beta strandi382 – 3854Combined sources
Beta strandi391 – 3944Combined sources
Beta strandi396 – 3994Combined sources
Helixi407 – 4104Combined sources
Beta strandi411 – 4133Combined sources
Helixi445 – 4495Combined sources
Turni450 – 4523Combined sources
Helixi487 – 4893Combined sources
Beta strandi495 – 4995Combined sources
Beta strandi501 – 51111Combined sources
Beta strandi518 – 5214Combined sources
Beta strandi525 – 5273Combined sources
Helixi529 – 5379Combined sources
Helixi545 – 5473Combined sources
Helixi551 – 5533Combined sources
Turni554 – 5574Combined sources
Turni560 – 5623Combined sources
Beta strandi580 – 5823Combined sources
Beta strandi584 – 5874Combined sources
Helixi589 – 5924Combined sources
Beta strandi600 – 60910Combined sources
Beta strandi617 – 6248Combined sources
Beta strandi633 – 6353Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4NJ5X-ray2.40A134-650[»]
ProteinModelPortaliQ9T0G7.
SMRiQ9T0G7. Positions 138-637.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini205 – 352148YDGPROSITE-ProRule annotationAdd
BLAST
Domaini432 – 49059Pre-SETPROSITE-ProRule annotationAdd
BLAST
Domaini493 – 637145SETPROSITE-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.

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.
InParanoidiQ9T0G7.
KOiK11420.
OMAiSWFDVGK.
PhylomeDBiQ9T0G7.

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.

Q9T0G7-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MGSSHIPLDP SLNPSPSLIP KLEPVTESTQ NLAFQLPNTN PQALISSAVS
60 70 80 90 100
DFNEATDFSS DYNTVAESAR SAFAQRLQRH DDVAVLDSLT GAIVPVEENP
110 120 130 140 150
EPEPNPYSTS DSSPSVATQR PRPQPRSSEL VRITDVGPES ERQFREHVRK
160 170 180 190 200
TRMIYDSLRM FLMMEEAKRN GVGGRRARAD GKAGKAGSMM RDCMLWMNRD
210 220 230 240 250
KRIVGSIPGV QVGDIFFFRF ELCVMGLHGH PQSGIDFLTG SLSSNGEPIA
260 270 280 290 300
TSVIVSGGYE DDDDQGDVIM YTGQGGQDRL GRQAEHQRLE GGNLAMERSM
310 320 330 340 350
YYGIEVRVIR GLKYENEVSS RVYVYDGLFR IVDSWFDVGK SGFGVFKYRL
360 370 380 390 400
ERIEGQAEMG SSVLKFARTL KTNPLSVRPR GYINFDISNG KENVPVYLFN
410 420 430 440 450
DIDSDQEPLY YEYLAQTSFP PGLFVQQSGN ASGCDCVNGC GSGCLCEAKN
460 470 480 490 500
SGEIAYDYNG TLIRQKPLIH ECGSACQCPP SCRNRVTQKG LRNRLEVFRS
510 520 530 540 550
LETGWGVRSL DVLHAGAFIC EYAGVALTRE QANILTMNGD TLVYPARFSS
560 570 580 590 600
ARWEDWGDLS QVLADFERPS YPDIPPVDFA MDVSKMRNVA CYISHSTDPN
610 620 630 640 650
VIVQFVLHDH NSLMFPRVML FAAENIPPMT ELSLDYGVVD DWNAKLAICN
Length:650
Mass (Da):72,174
Last modified:May 1, 2000 - v1
Checksum:iB2F291C5FA18A6E9
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF344452 mRNA. Translation: AAK28974.1.
AL049656 Genomic DNA. Translation: CAB41104.1.
AL161536 Genomic DNA. Translation: CAB78388.1.
CP002687 Genomic DNA. Translation: AEE83282.1.
CP002687 Genomic DNA. Translation: AEE83283.1.
PIRiT06648.
RefSeqiNP_001031625.1. NM_001036548.1.
NP_193082.1. NM_117420.2.
UniGeneiAt.3118.

Genome annotation databases

EnsemblPlantsiAT4G13460.1; AT4G13460.1; AT4G13460.
AT4G13460.2; AT4G13460.2; AT4G13460.
GeneIDi826978.
KEGGiath:AT4G13460.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF344452 mRNA. Translation: AAK28974.1 .
AL049656 Genomic DNA. Translation: CAB41104.1 .
AL161536 Genomic DNA. Translation: CAB78388.1 .
CP002687 Genomic DNA. Translation: AEE83282.1 .
CP002687 Genomic DNA. Translation: AEE83283.1 .
PIRi T06648.
RefSeqi NP_001031625.1. NM_001036548.1.
NP_193082.1. NM_117420.2.
UniGenei At.3118.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
4NJ5 X-ray 2.40 A 134-650 [» ]
ProteinModelPortali Q9T0G7.
SMRi Q9T0G7. Positions 138-637.
ModBasei Search...
MobiDBi Search...

Proteomic databases

PaxDbi Q9T0G7.
PRIDEi Q9T0G7.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi AT4G13460.1 ; AT4G13460.1 ; AT4G13460 .
AT4G13460.2 ; AT4G13460.2 ; AT4G13460 .
GeneIDi 826978.
KEGGi ath:AT4G13460.

Organism-specific databases

TAIRi AT4G13460.

Phylogenomic databases

eggNOGi COG3440.
HOGENOMi HOG000238382.
InParanoidi Q9T0G7.
KOi K11420.
OMAi SWFDVGK.
PhylomeDBi Q9T0G7.

Enzyme and pathway databases

BioCyci ARA:AT4G13460-MONOMER.
ARA:GQT-2273-MONOMER.

Gene expression databases

ExpressionAtlasi Q9T0G7. baseline and differential.
Genevestigatori Q9T0G7.

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], NOMENCLATURE.
  2. "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana."
    Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T., Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B., Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M., de Simone V., Obermaier B.
    , Mache R., Mueller M., Kreis M., Delseny M., Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D., Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J., Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B., Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J., Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R., Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M., Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C., Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J., Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S., Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A., Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M., Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D., Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E., Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S., Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R., Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M., Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E., Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P., Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K., Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K., de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K., Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M., Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G., Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K., Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K., Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W., Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H., Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B., Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J., Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K., O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N., Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A., Martienssen R., McCombie W.R.
    Nature 402:769-777(1999) [PubMed] [Europe PMC] [Abstract]
    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. "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: GENE FAMILY.
  5. "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.
  6. "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: X-RAY CRYSTALLOGRAPHY (2.40 ANGSTROMS) OF 134-650 IN COMPLEX WITH ZINC IONS, SUBCELLULAR LOCATION, FUNCTION.

Entry informationi

Entry nameiSUVH9_ARATH
AccessioniPrimary (citable) accession number: Q9T0G7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 9, 2003
Last sequence update: May 1, 2000
Last modified: October 29, 2014
This is version 107 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3