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Protein

Putative DNA (cytosine-5)-methyltransferase CMT1

Gene

CMT1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Protein uncertaini

Functioni

May be involved in the CpXpG methylation and in gene silencing.By similarity

Catalytic activityi

S-adenosyl-L-methionine + DNA = S-adenosyl-L-homocysteine + DNA containing 5-methylcytosine.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei417 – 4171PROSITE-ProRule annotation

GO - Molecular functioni

  1. chromatin binding Source: InterPro
  2. DNA (cytosine-5-)-methyltransferase activity Source: UniProtKB-EC
  3. DNA binding Source: UniProtKB-KW

GO - Biological processi

  1. chromatin modification Source: UniProtKB-KW
  2. DNA mediated transformation Source: TAIR
  3. regulation of transcription, DNA-templated Source: UniProtKB-KW
  4. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Methyltransferase, Transferase

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciARA:AT1G80740-MONOMER.

Protein family/group databases

REBASEi3261. M.AthCMT1P.

Names & Taxonomyi

Protein namesi
Recommended name:
Putative DNA (cytosine-5)-methyltransferase CMT1 (EC:2.1.1.37)
Alternative name(s):
Chromomethylase 1
Protein CHROMOMETHYLASE 1
Gene namesi
Name:CMT1
Ordered Locus Names:At1g80740
ORF Names:F23A5.9
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
ProteomesiUP000006548: Chromosome 1

Organism-specific databases

TAIRiAT1G80740.

Subcellular locationi

Nucleus By similarity

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 791791Putative DNA (cytosine-5)-methyltransferase CMT1PRO_0000246691Add
BLAST

Proteomic databases

PaxDbiO49139.
PRIDEiO49139.

Expressioni

Tissue specificityi

Expressed in flowers. Not detected in leaves, roots, seedlings and plants prior formation of flower buds.1 Publication

Gene expression databases

ExpressionAtlasiO49139. differential.
GenevestigatoriO49139.

Structurei

3D structure databases

ProteinModelPortaliO49139.
SMRiO49139. Positions 12-778.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini79 – 199121BAHPROSITE-ProRule annotationAdd
BLAST
Domaini225 – 768544SAM-dependent MTase C5-typePROSITE-ProRule annotationAdd
BLAST
Domaini339 – 40466ChromoPROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili308 – 33326Sequence AnalysisAdd
BLAST

Sequence similaritiesi

Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.PROSITE-ProRule annotation
Contains 1 BAH domain.PROSITE-ProRule annotation
Contains 1 chromo domain.PROSITE-ProRule annotation
Contains 1 SAM-dependent MTase C5-type domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiCOG0270.
InParanoidiO49139.
KOiK00558.
OMAiERVCRIP.
PhylomeDBiO49139.

Family and domain databases

Gene3Di3.40.50.150. 2 hits.
InterProiIPR001025. BAH_dom.
IPR001525. C5_MeTfrase.
IPR017984. Chromo_dom_subgr.
IPR023780. Chromo_domain.
IPR000953. Chromo_domain/shadow.
IPR016197. Chromodomain-like.
IPR023779. Chromodomain_CS.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01426. BAH. 1 hit.
PF00385. Chromo. 1 hit.
[Graphical view]
PRINTSiPR00105. C5METTRFRASE.
PR00504. CHROMODOMAIN.
SMARTiSM00439. BAH. 1 hit.
SM00298. CHROMO. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 4 hits.
SSF54160. SSF54160. 1 hit.
PROSITEiPS51038. BAH. 1 hit.
PS00598. CHROMO_1. 1 hit.
PS50013. CHROMO_2. 1 hit.
PS51679. SAM_MT_C5. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: O49139-1) [UniParc]FASTAAdd to Basket

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.

« Hide

        10         20         30         40         50
MAARNKQKKR AEPESDLCFA GKPMSVVEST IRWPHRYQSK KTKLQAPTKK
60 70 80 90 100
PANKGGKKED EEIIKQAKCH FDKALVDGVL INLNDDVYVT GLPGKLKFIA
110 120 130 140 150
KVIELFEADD GVPYCRFRWY YRPEDTLIER FSHLVQPKRV FLSNDENDNP
160 170 180 190 200
LTCIWSKVNI AKVPLPKITS RIEQRVIPPC DYYYDMKYEV PYLNFTSADD
210 220 230 240 250
GSDASSSLSS DSALNCFENL HKDEKFLLDL YSGCGAMSTG FCMGASISGV
260 270 280 290 300
KLITKWSVDI NKFACDSLKL NHPETEVRNE AAEDFLALLK EWKRLCEKFS
310 320 330 340 350
LVSSTEPVES ISELEDEEVE ENDDIDEAST GAELEPGEFE VEKFLGIMFG
360 370 380 390 400
DPQGTGEKTL QLMVRWKGYN SSYDTWEPYS GLGNCKEKLK EYVIDGFKSH
410 420 430 440 450
LLPLPGTVYT VCGGPPCQGI SGYNRYRNNE APLEDQKNQQ LLVFLDIIDF
460 470 480 490 500
LKPNYVLMEN VVDLLRFSKG FLARHAVASF VAMNYQTRLG MMAAGSYGLP
510 520 530 540 550
QLRNRVFLWA AQPSEKLPPY PLPTHEVAKK FNTPKEFKDL QVGRIQMEFL
560 570 580 590 600
KLDNALTLAD AISDLPPVTN YVANDVMDYN DAAPKTEFEN FISLKRSETL
610 620 630 640 650
LPAFGGDPTR RLFDHQPLVL GDDDLERVSY IPKQKGANYR DMPGVLVHNN
660 670 680 690 700
KAEINPRFRA KLKSGKNVVP AYAISFIKGK SKKPFGRLWG DEIVNTVVTR
710 720 730 740 750
AEPHNQCVIH PMQNRVLSVR ENARLQGFPD CYKLCGTIKE KYIQVGNAVA
760 770 780 790
VPVGVALGYA FGMASQGLTD DEPVIKLPFK YPECMQAKDQ I
Length:791
Mass (Da):89,219
Last modified:July 25, 2006 - v2
Checksum:iA5ECFDBC274B215C
GO
Isoform 2 (identifier: O49139-2) [UniParc]FASTAAdd to Basket

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.

Show »
Length:570
Mass (Da):64,557
Checksum:iD08B184B4F3C6ADA
GO

Sequence cautioni

The sequence AAA98912.1 differs from that shown. Reason: Erroneous gene model prediction. Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti148 – 1481D → G in strain: cv. Metz-0.
Natural varianti196 – 1961T → I in strain: cv. Kl-0.
Natural varianti198 – 1981A → T in strain: cv. No-0.
Natural varianti249 – 791543Missing in strain: cv. Metz-0.
Add
BLAST
Natural varianti560 – 5601D → V in strain: cv. Landsberg erecta, cv. No-0 and cv. RLD.
Natural varianti561 – 791231Missing in strain: cv. Landsberg erecta, cv. No-0 and cv. RLD.
Add
BLAST
Natural varianti604 – 6041F → C in strain: cv. Nd-1, Nd-0 and cv. Kl-0.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei568 – 5703VTN → CCR in isoform 2. 1 PublicationVSP_019857
Alternative sequencei571 – 791221Missing in isoform 2. 1 PublicationVSP_019858Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
CP002684 Genomic DNA. Translation: AEE36442.1.
PIRiH96839.
RefSeqiNP_565245.1. NM_106722.2. [O49139-1]
UniGeneiAt.5460.

Genome annotation databases

EnsemblPlantsiAT1G80740.1; AT1G80740.1; AT1G80740. [O49139-1]
GeneIDi844413.
KEGGiath:AT1G80740.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
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.
CP002684 Genomic DNA. Translation: AEE36442.1.
PIRiH96839.
RefSeqiNP_565245.1. NM_106722.2. [O49139-1]
UniGeneiAt.5460.

3D structure databases

ProteinModelPortaliO49139.
SMRiO49139. Positions 12-778.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

REBASEi3261. M.AthCMT1P.

Proteomic databases

PaxDbiO49139.
PRIDEiO49139.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G80740.1; AT1G80740.1; AT1G80740. [O49139-1]
GeneIDi844413.
KEGGiath:AT1G80740.

Organism-specific databases

TAIRiAT1G80740.

Phylogenomic databases

eggNOGiCOG0270.
InParanoidiO49139.
KOiK00558.
OMAiERVCRIP.
PhylomeDBiO49139.

Enzyme and pathway databases

BioCyciARA:AT1G80740-MONOMER.

Gene expression databases

ExpressionAtlasiO49139. differential.
GenevestigatoriO49139.

Family and domain databases

Gene3Di3.40.50.150. 2 hits.
InterProiIPR001025. BAH_dom.
IPR001525. C5_MeTfrase.
IPR017984. Chromo_dom_subgr.
IPR023780. Chromo_domain.
IPR000953. Chromo_domain/shadow.
IPR016197. Chromodomain-like.
IPR023779. Chromodomain_CS.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01426. BAH. 1 hit.
PF00385. Chromo. 1 hit.
[Graphical view]
PRINTSiPR00105. C5METTRFRASE.
PR00504. CHROMODOMAIN.
SMARTiSM00439. BAH. 1 hit.
SM00298. CHROMO. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 4 hits.
SSF54160. SSF54160. 1 hit.
PROSITEiPS51038. BAH. 1 hit.
PS00598. CHROMO_1. 1 hit.
PS50013. CHROMO_2. 1 hit.
PS51679. SAM_MT_C5. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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] [Europe PMC] [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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  4. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.

Entry informationi

Entry nameiCMT1_ARATH
AccessioniPrimary (citable) accession number: O49139
Secondary accession number(s): O49137
, O49138, O49141, O50057, O50073, Q38940, Q7G196
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 25, 2006
Last sequence update: July 25, 2006
Last modified: February 4, 2015
This is version 109 of the entry and version 2 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.