DNA (cytosine-5)-methyltransferase CMT3 - Arabidopsis thaliana (Mouse-ear cress)

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Q94F88 (CMT3_ARATH) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 83. History...

Clusters with 100%, 90%, 50% identity |

Documents (2) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
DNA (cytosine-5)-methyltransferase CMT3
EC=2.1.1.37

Alternative name(s):
Chromomethylase 3
Protein CHROMOMETHYLASE 3

Gene names

Name:	CMT3
Ordered Locus Names:	At1g69770
ORF Names:	T6C23.3

Organism

Arabidopsis thaliana (Mouse-ear cress) [Reference proteome]

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › malvids › Brassicales › Brassicaceae › Camelineae › Arabidopsis

Protein attributes

Sequence length	839 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Involved in the CpXpG methylation and in gene silencing. Methylates preferentially transposon-related sequences. Functionally redundant to DRM1/DRM2 to maintain non-CpG methylation. Involved in RNA-directed DNA methylation. Ref.3 Ref.4 Ref.7 Ref.8
Catalytic activity	S-adenosyl-L-methionine + DNA = S-adenosyl-L-homocysteine + DNA containing 5-methylcytosine.
Subunit structure	Homodimer. Interacts with HP1 and, through its chromodomain, with the N-terminal tail of histone H3 doubly methylated at 'Lys-9' and 'Lys-27'. Ref.5 Ref.6
Subcellular location	Nucleus By similarity.
Sequence similarities	Belongs to the C5-methyltransferase family. Contains 1 BAH domain. Contains 1 chromo domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Ligand	DNA-binding S-adenosyl-L-methionine
Molecular function	Chromatin regulator Methyltransferase Transferase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA methylation on cytosine within a CNG sequence Inferred from mutant phenotype Ref.4. Source: TAIR chromatin silencing Inferred from genetic interaction Ref.4. Source: TAIR histone H3-K9 methylation Inferred from genetic interaction PubMed 17239600. Source: TAIR transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW zygote asymmetric cytokinesis in embryo sac Inferred from mutant phenotype PubMed 16531498. Source: TAIR
Cellular_component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	DNA (cytosine-5-)-methyltransferase activity Inferred from mutant phenotype Ref.3. Source: TAIR DNA binding Inferred from electronic annotation. Source: UniProtKB-KW
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 839

839

DNA (cytosine-5)-methyltransferase CMT3

PRO_0000246693

Regions

Domain

108 – 227

120

BAH

Domain

382 – 447

Chromo

Experimental info

Mutagenesis

279

G → E: Loss of activity. Ref.3

Mutagenesis

382

F → A: Loss of binding to H3. Ref.5

Mutagenesis

456

G → D: Loss of activity. Ref.3

Mutagenesis

465

G → D: Loss of activity. Ref.3

Mutagenesis

470

R → K in cmt3-10; partial loss of activity. Ref.4

Mutagenesis

541

G → E in cmt3-6; loss of activity. Ref.4

Mutagenesis

542

L → F: Loss of activity. Ref.3

Mutagenesis

683

R → K: Loss of activity. Ref.3

Mutagenesis

724

G → E in cmt3-4; loss of activity. Ref.4

Mutagenesis

733

L → F: Loss of activity. Ref.3

Mutagenesis

748

P → L: Loss of activity. Ref.3

Mutagenesis

763

S → F in cmt3-8; partial loss of activity. Ref.4

Mutagenesis

769

R → K in cmt3-3; loss of activity. Ref.4

Mutagenesis

807

G → R: Loss of activity. Ref.3

Sequence conflict

138

A → V in AAK71870. Ref.4

Sequence conflict

165

K → N in AAK71870. Ref.4

Sequence conflict

166

K → E in AAK69756. Ref.3

Sequence conflict

266 – 268

HKK → QKE in AAK71870. Ref.4

Sequence conflict

433

E → G in AAK71870. Ref.4

Sequence conflict

821 – 822

LT → II in AAK71870. Ref.4

Sequences

Sequence

Length

Mass (Da)

Tools

Q94F88 [UniParc].

Last modified July 25, 2006. Version 2.
Checksum: B1B4D5F7AE0A3AAC
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FASTA

839

94,905

        10         20         30         40         50         60 
MAPKRKRPAT KDDTTKSIPK PKKRAPKRAK TVKEEPVTVV EEGEKHVARF LDEPIPESEA 

        70         80         90        100        110        120 
KSTWPDRYKP IEVQPPKASS RKKTKDDEKV EIIRARCHYR RAIVDERQIY ELNDDAYVQS 

       130        140        150        160        170        180 
GEGKDPFICK IIEMFEGANG KLYFTARWFY RPSDTVMKEF EILIKKKRVF FSEIQDTNEL 

       190        200        210        220        230        240 
GLLEKKLNIL MIPLNENTKE TIPATENCDF FCDMNYFLPY DTFEAIQQET MMAISESSTI 

       250        260        270        280        290        300 
SSDTDIREGA AAISEIGECS QETEGHKKAT LLDLYSGCGA MSTGLCMGAQ LSGLNLVTKW 

       310        320        330        340        350        360 
AVDMNAHACK SLQHNHPETN VRNMTAEDFL FLLKEWEKLC IHFSLRNSPN SEEYANLHGL 

       370        380        390        400        410        420 
NNVEDNEDVS EESENEDDGE VFTVDKIVGI SFGVPKKLLK RGLYLKVRWL NYDDSHDTWE 

       430        440        450        460        470        480 
PIEGLSNCRG KIEEFVKLGY KSGILPLPGG VDVVCGGPPC QGISGHNRFR NLLDPLEDQK 

       490        500        510        520        530        540 
NKQLLVYMNI VEYLKPKFVL MENVVDMLKM AKGYLARFAV GRLLQMNYQV RNGMMAAGAY 

       550        560        570        580        590        600 
GLAQFRLRFF LWGALPSEII PQFPLPTHDL VHRGNIVKEF QGNIVAYDEG HTVKLADKLL 

       610        620        630        640        650        660 
LKDVISDLPA VANSEKRDEI TYDKDPTTPF QKFIRLRKDE ASGSQSKSKS KKHVLYDHHP 

       670        680        690        700        710        720 
LNLNINDYER VCQVPKRKGA NFRDFPGVIV GPGNVVKLEE GKERVKLESG KTLVPDYALT 

       730        740        750        760        770        780 
YVDGKSCKPF GRLWWDEIVP TVVTRAEPHN QVIIHPEQNR VLSIRENARL QGFPDDYKLF 

       790        800        810        820        830 
GPPKQKYIQV GNAVAVPVAK ALGYALGTAF QGLAVGKDPL LTLPEGFAFM KPTLPSELA

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana." Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O., Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E., Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K. Davis R.W. Nature 408:816-820(2000) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
[2]	The Arabidopsis Information Resource (TAIR) Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: cv. Columbia.
[3]	"Arabidopsis cmt3 chromomethylase mutations block non-CG methylation and silencing of an endogenous gene." Bartee L., Malagnac F., Bender J. Genes Dev. 15:1753-1758(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], MUTAGENESIS OF GLY-279; GLY-456; GLY-465; LEU-542; ARG-683; LEU-733; PRO-748 AND GLY-807, FUNCTION. Strain: cv. Wassilewskija.
[4]	"Requirement of CHROMOMETHYLASE3 for maintenance of CpXpG methylation." Lindroth A.M., Cao X., Jackson J.P., Zilberman D., McCallum C.M., Henikoff S., Jacobsen S.E. Science 292:2077-2080(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], MUTAGENESIS OF ARG-470; GLY-541; GLY-724; SER-763 AND ARG-769, FUNCTION. Strain: cv. Landsberg erecta.
[5]	"Dual histone H3 methylation marks at lysines 9 and 27 required for interaction with CHROMOMETHYLASE3." Lindroth A.M., Shultis D., Jasencakova Z., Fuchs J., Johnson L., Schubert D., Patnaik D., Pradhan S., Goodrich J., Schubert I., Jenuwein T., Khorasanizadeh S., Jacobsen S.E. EMBO J. 23:4286-4296(2004) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH H3, MUTAGENESIS OF PHE-382.
[6]	"Control of CpNpG DNA methylation by the KRYPTONITE histone H3 methyltransferase." Jackson J.P., Lindroth A.M., Cao X., Jacobsen S.E. Nature 416:556-560(2002) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH HP1.
[7]	"Genome-wide profiling of DNA methylation reveals transposon targets of CHROMOMETHYLASE3." Tompa R., McCallum C.M., Delrow J., Henikoff J.G., van Steensel B., Henikoff S. Curr. Biol. 12:65-68(2002) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[8]	"Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation." Cao X., Aufsatz W., Zilberman D., Mette M.F., Huang M.S., Matzke M., Jacobsen S.E. Curr. Biol. 13:2212-2217(2003) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AC013289 Genomic DNA. Translation: AAG52543.1. CP002684 Genomic DNA. Translation: AEE34973.1. AF383170 Genomic DNA. Translation: AAK69756.1. AF364174 Genomic DNA. Translation: AAK71870.1.
IPI	IPI00534552.
PIR	G96719.
RefSeq	NP_177135.1. NM_105645.3.
UniGene	At.35376.
3D structure databases
ProteinModelPortal	Q94F88.
SMR	Q94F88. Positions 46-827.
ModBase	Search...
Protein family/group databases
REBASE	4853. M.AthCMT3.
Proteomic databases
PaxDb	Q94F88.
PRIDE	Q94F88.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblPlants	AT1G69770.1; AT1G69770.1; AT1G69770.
GeneID	843313.
KEGG	ath:AT1G69770.
Organism-specific databases
TAIR	At1g69770.
Phylogenomic databases
eggNOG	COG0270.
HOGENOM	HOG000082844.
InParanoid	Q94F88.
KO	K00558.
OMA	EWEKLCI.
PhylomeDB	Q94F88.
ProtClustDB	CLSN2913566.
Gene expression databases
ArrayExpress	Q94F88.
Genevestigator	Q94F88.
GermOnline	AT1G69770. Arabidopsis thaliana.
Family and domain databases
InterPro	IPR001025. BAH_dom. IPR018117. C5_DNA_meth_AS. IPR001525. C5_MeTfrase. IPR025821. C5_MeTfrase_pln. IPR023780. Chromo_domain. IPR000953. Chromo_domain/shadow. IPR016197. Chromodomain-like. IPR023779. Chromodomain_CS. [Graphical view]
PANTHER	PTHR10629. PTHR10629. 1 hit.
Pfam	PF01426. BAH. 1 hit. PF00385. Chromo. 1 hit. PF00145. DNA_methylase. 1 hit. [Graphical view]
PRINTS	PR00105. C5METTRFRASE.
SMART	SM00439. BAH. 1 hit. SM00298. CHROMO. 1 hit. [Graphical view]
SUPFAM	SSF54160. Chromodomain-like. 1 hit.
TIGRFAMs	TIGR00675. dcm. 1 hit.
PROSITE	PS51038. BAH. 1 hit. PS00094. C5_MTASE_1. 1 hit. PS00598. CHROMO_1. 1 hit. PS50013. CHROMO_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

CMT3_ARATH

Accession

Primary (citable) accession number: Q94F88
Secondary accession number(s): Q94FN4, Q9C9L8

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 25, 2006
Last sequence update:	July 25, 2006
Last modified:	May 1, 2013
This is version 83 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Plant Protein Annotation Program

Relevant documents

Arabidopsis thaliana

Arabidopsis thaliana: entries and gene names

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Experimental info

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein family/group databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Entry information

Relevant documents