Reviewed, UniProtKB/Swiss-Prot O49139 (CMT1_ARATH)

Names and origin

Protein names

Recommended name:
    Putative DNA (cytosine-5)-methyltransferase CMT1
    EC=2.1.1.37
Alternative name(s):
    Chromomethylase 1
    Protein CHROMOMETHYLASE 1

Gene names

Name:	CMT1
Ordered Locus Names:	At1g80740
ORF Names:	F23A5.9

Organism

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

Taxonomic identifier

3702 [NCBI]

Taxonomic lineage

Eukaryota › Viridiplantae › Streptophyta › Embryophyta › Tracheophyta › Spermatophyta › Magnoliophyta › eudicotyledons › core eudicotyledons › rosids › eurosids II › Brassicales › Brassicaceae › Arabidopsis

Protein attributes

Sequence length	791 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Uncertain.

General annotation (Comments)

Function	May be involved in the CpXpG methylation and in gene silencing By similarity.
Catalytic activity	S-adenosyl-L-methionine + DNA = S-adenosyl-L-homocysteine + DNA containing 5-methylcytosine.
Subcellular location	Nucleus By similarity.
Tissue specificity	Expressed in flowers. Not detected in leaves, roots, seedlings and plants prior formation of flower buds. Ref.1
Sequence similarities	Belongs to the C5-methyltransferase family. Contains 1 BAH domain. Contains 1 chromo domain.
Caution	Could be the product of a pseudogene. The protein is severely truncated in several ecotypes and the gene even harbors a complete retrotransposon in 3 ecotypes.
Sequence caution	The sequence AAA98912.1 differs from that shown. Reason: Erroneous gene model prediction.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Coiled coil
Ligand	DNA-binding S-adenosyl-L-methionine
Molecular function	Chromatin regulator Methyltransferase Transferase
Technical term	Complete proteome
Gene Ontology (GO)
Biological process	DNA mediated transformation Inferred from mutant phenotype. Source: TAIR DNA methylation Inferred from electronic annotation. Source: InterPro chromatin assembly or disassembly Inferred from electronic annotation. Source: InterPro chromatin modification Inferred from electronic annotation. Source: UniProtKB-KW regulation of transcription Inferred from electronic annotation. Source: UniProtKB-KW transcription Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	chromatin Inferred from electronic annotation. Source: InterPro nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	DNA (cytosine-5-)-methyltransferase activity Inferred from electronic annotation. Source: EC DNA binding Inferred from electronic annotation. Source: UniProtKB-KW chromatin binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Note: Additional isoforms seem to exist.

Isoform 1 (identifier: O49139-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

Isoform 2 (identifier: O49139-2)

The sequence of this isoform differs from the canonical sequence as follows:
     568-570: VTN → CCR
     571-791: Missing.

Note: Alternative splice site used 50% of the time in cv. Columbia.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 791	791	Putative DNA (cytosine-5)-methyltransferase CMT1		PRO_0000246691
Regions
	Domain	79 – 199	121	BAH
	Domain	339 – 404	66	Chromo
	Coiled coil	308 – 333	26	Potential
Natural variations
	Alternative sequence	568 – 570	3	VTN → CCR in isoform 2.		VSP_019857
	Alternative sequence	571 – 791	221	Missing in isoform 2.		VSP_019858
	Natural variant	148	1	D → G in strain: cv. Metz-0.
	Natural variant	196	1	T → I in strain: cv. Kl-0.
	Natural variant	198	1	A → T in strain: cv. No-0.
	Natural variant	249 – 791	543	Missing in strain: cv. Metz-0.
	Natural variant	560	1	D → V in strain: cv. Landsberg erecta, cv. No-0 and cv. RLD.
	Natural variant	561 – 791	231	Missing in strain: cv. Landsberg erecta, cv. No-0 and cv. RLD.
	Natural variant	604	1	F → C in strain: cv. Nd-1, Nd-0 and cv. Kl-0.

Sequences

	Sequence		Length	Mass (Da)
	Isoform 1 [UniParc]. Last modified July 25, 2006. Version 2. Checksum: A5ECFDBC274B215C	FASTA	791	89,219
	10 20 30 40 50 60 MAARNKQKKR AEPESDLCFA GKPMSVVEST IRWPHRYQSK KTKLQAPTKK PANKGGKKED 70 80 90 100 110 120 EEIIKQAKCH FDKALVDGVL INLNDDVYVT GLPGKLKFIA KVIELFEADD GVPYCRFRWY 130 140 150 160 170 180 YRPEDTLIER FSHLVQPKRV FLSNDENDNP LTCIWSKVNI AKVPLPKITS RIEQRVIPPC 190 200 210 220 230 240 DYYYDMKYEV PYLNFTSADD GSDASSSLSS DSALNCFENL HKDEKFLLDL YSGCGAMSTG 250 260 270 280 290 300 FCMGASISGV KLITKWSVDI NKFACDSLKL NHPETEVRNE AAEDFLALLK EWKRLCEKFS 310 320 330 340 350 360 LVSSTEPVES ISELEDEEVE ENDDIDEAST GAELEPGEFE VEKFLGIMFG DPQGTGEKTL 370 380 390 400 410 420 QLMVRWKGYN SSYDTWEPYS GLGNCKEKLK EYVIDGFKSH LLPLPGTVYT VCGGPPCQGI 430 440 450 460 470 480 SGYNRYRNNE APLEDQKNQQ LLVFLDIIDF LKPNYVLMEN VVDLLRFSKG FLARHAVASF 490 500 510 520 530 540 VAMNYQTRLG MMAAGSYGLP QLRNRVFLWA AQPSEKLPPY PLPTHEVAKK FNTPKEFKDL 550 560 570 580 590 600 QVGRIQMEFL KLDNALTLAD AISDLPPVTN YVANDVMDYN DAAPKTEFEN FISLKRSETL 610 620 630 640 650 660 LPAFGGDPTR RLFDHQPLVL GDDDLERVSY IPKQKGANYR DMPGVLVHNN KAEINPRFRA 670 680 690 700 710 720 KLKSGKNVVP AYAISFIKGK SKKPFGRLWG DEIVNTVVTR AEPHNQCVIH PMQNRVLSVR 730 740 750 760 770 780 ENARLQGFPD CYKLCGTIKE KYIQVGNAVA VPVGVALGYA FGMASQGLTD DEPVIKLPFK 790 YPECMQAKDQ I
	Isoform 2. Checksum: D08B184B4F3C6ADA	FASTA	570	64,557
	10 20 30 40 50 60 MAARNKQKKR AEPESDLCFA GKPMSVVEST IRWPHRYQSK KTKLQAPTKK PANKGGKKED 70 80 90 100 110 120 EEIIKQAKCH FDKALVDGVL INLNDDVYVT GLPGKLKFIA KVIELFEADD GVPYCRFRWY 130 140 150 160 170 180 YRPEDTLIER FSHLVQPKRV FLSNDENDNP LTCIWSKVNI AKVPLPKITS RIEQRVIPPC 190 200 210 220 230 240 DYYYDMKYEV PYLNFTSADD GSDASSSLSS DSALNCFENL HKDEKFLLDL YSGCGAMSTG 250 260 270 280 290 300 FCMGASISGV KLITKWSVDI NKFACDSLKL NHPETEVRNE AAEDFLALLK EWKRLCEKFS 310 320 330 340 350 360 LVSSTEPVES ISELEDEEVE ENDDIDEAST GAELEPGEFE VEKFLGIMFG DPQGTGEKTL 370 380 390 400 410 420 QLMVRWKGYN SSYDTWEPYS GLGNCKEKLK EYVIDGFKSH LLPLPGTVYT VCGGPPCQGI 430 440 450 460 470 480 SGYNRYRNNE APLEDQKNQQ LLVFLDIIDF LKPNYVLMEN VVDLLRFSKG FLARHAVASF 490 500 510 520 530 540 VAMNYQTRLG MMAAGSYGLP QLRNRVFLWA AQPSEKLPPY PLPTHEVAKK FNTPKEFKDL 550 560 570 QVGRIQMEFL KLDNALTLAD AISDLPPCCR

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A DNA methyltransferase homolog with a chromodomain exists in multiple polymorphic forms in Arabidopsis." Henikoff S., Comai L. Genetics 149:307-318(1998) [PubMed: 9584105] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORMS 1 AND 2), TISSUE SPECIFICITY. Strain: cv. Columbia, cv. Kl-0, cv. Landsberg erecta, cv. Metz-0, cv. Nd-0, cv. Nd-1 and cv. RLD.
[2]	"A 37.5 Kb sequence from Arabidopsis thaliana chromosome I." Goodman H.M., Gallant P., Keifer-Higgins S., Rubenfield M., Church G.M. Submitted (APR-1996) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: cv. Columbia.
[3]	"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. , Conn L., Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P., Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D., Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J., Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L., Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A., Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A., Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M., Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M., Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P., Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D., Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D., Yu G., Fraser C.M., Venter J.C., Davis R.W. Nature 408:816-820(2000) [PubMed: 11130712] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: cv. Columbia.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AF039364 mRNA. Translation: AAB95485.1. AF039366 Genomic DNA. Translation: AAC02659.1. AF039367 Genomic DNA. Translation: AAC02660.1. AF039368 Genomic DNA. Translation: AAC02661.1. AF039369 Genomic DNA. Translation: AAC02662.1. AF039370 Genomic DNA. Translation: AAC02663.1. AF039371 Genomic DNA. Translation: AAC02665.1. AF039372 Genomic DNA. Translation: AAC02667.1. AF039373 Genomic DNA. Translation: AAC02668.1. U53501 Genomic DNA. Translation: AAA98912.1. Sequence problems. AC011713 Genomic DNA. Translation: AAF14662.1.
IPI	IPI00531370. IPI00782822.
PIR	H96839.
RefSeq	NP_565245.1.
UniGene	At.5460
3D structure databases
ModBase	Search...
Proteomic databases
PRIDE	O49139.
Genome annotation databases
GeneID	844413.
GenomeReviews	Gene locus AT1G80740 in contig CT485782_GR.
KEGG	ath:AT1G80740.
NMPDR	fig|3702.1.peg.7665.
Organism-specific databases
TAIR	At1g80740.
Phylogenomic databases
OMA	ETEVRNE.
Enzyme and pathway databases
BRENDA	2.1.1.37. 302.
Gene expression databases
Genevestigator	O49139.
GermOnline	AT1G80740. Arabidopsis thaliana.
Family and domain databases
InterPro	IPR001025. BAH. IPR001525. C5_DNA_meth. IPR017984. Chromo_dom_subgr. IPR000953. Chromodomain. [Graphical view]
PANTHER	PTHR10629. C5_DNA_meth. 1 hit.
Pfam	PF01426. BAH. 1 hit. PF00385. Chromo. 1 hit. PF00145. DNA_methylase. 2 hits. [Graphical view]
PRINTS	PR00105. C5METTRFRASE. PR00504. CHROMODOMAIN.
SMART	SM00439. BAH. 1 hit. SM00298. CHROMO. 1 hit. [Graphical view]
PROSITE	PS51038. BAH. 1 hit. PS00598. CHROMO_1. 1 hit. PS50013. CHROMO_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

CMT1_ARATH

Accession

Primary (citable) accession number: O49139
Secondary accession number(s): O49137 , O49138, O49141, O50057, O50073, Q38940, Q7G196

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 25, 2006
Last sequence update:	July 25, 2006
Last modified:	November 3, 2009
This is version 59 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

PPAP (Plant Proteome Annotation Project)