CMT1_ARATH
ID CMT1_ARATH Reviewed; 791 AA.
AC O49139; O49137; O49138; O49141; O50057; O50073; Q38940; Q7G196;
DT 25-JUL-2006, integrated into UniProtKB/Swiss-Prot.
DT 25-JUL-2006, sequence version 2.
DT 03-AUG-2022, entry version 156.
DE RecName: Full=Putative DNA (cytosine-5)-methyltransferase CMT1;
DE EC=2.1.1.37;
DE AltName: Full=Chromomethylase 1;
DE AltName: Full=Protein CHROMOMETHYLASE 1;
GN Name=CMT1; OrderedLocusNames=At1g80740; ORFNames=F23A5.9;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORMS 1 AND 2), AND TISSUE
RP SPECIFICITY.
RC STRAIN=cv. Columbia, cv. Kl-0, cv. Landsberg erecta, cv. Metz-0, cv. Nd-0,
RC cv. Nd-1, and cv. RLD;
RX PubMed=9584105; DOI=10.1093/genetics/149.1.307;
RA Henikoff S., Comai L.;
RT "A DNA methyltransferase homolog with a chromodomain exists in multiple
RT polymorphic forms in Arabidopsis.";
RL Genetics 149:307-318(1998).
RN [2]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=cv. Columbia;
RA Goodman H.M., Gallant P., Keifer-Higgins S., Rubenfield M., Church G.M.;
RT "A 37.5 Kb sequence from Arabidopsis thaliana chromosome I.";
RL Submitted (APR-1996) to the EMBL/GenBank/DDBJ databases.
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=11130712; DOI=10.1038/35048500;
RA Theologis A., Ecker J.R., Palm C.J., Federspiel N.A., Kaul S., White O.,
RA Alonso J., Altafi H., Araujo R., Bowman C.L., Brooks S.Y., Buehler E.,
RA Chan A., Chao Q., Chen H., Cheuk R.F., Chin C.W., Chung M.K., Conn L.,
RA Conway A.B., Conway A.R., Creasy T.H., Dewar K., Dunn P., Etgu P.,
RA Feldblyum T.V., Feng J.-D., Fong B., Fujii C.Y., Gill J.E., Goldsmith A.D.,
RA Haas B., Hansen N.F., Hughes B., Huizar L., Hunter J.L., Jenkins J.,
RA Johnson-Hopson C., Khan S., Khaykin E., Kim C.J., Koo H.L.,
RA Kremenetskaia I., Kurtz D.B., Kwan A., Lam B., Langin-Hooper S., Lee A.,
RA Lee J.M., Lenz C.A., Li J.H., Li Y.-P., Lin X., Liu S.X., Liu Z.A.,
RA Luros J.S., Maiti R., Marziali A., Militscher J., Miranda M., Nguyen M.,
RA Nierman W.C., Osborne B.I., Pai G., Peterson J., Pham P.K., Rizzo M.,
RA Rooney T., Rowley D., Sakano H., Salzberg S.L., Schwartz J.R., Shinn P.,
RA Southwick A.M., Sun H., Tallon L.J., Tambunga G., Toriumi M.J., Town C.D.,
RA Utterback T., Van Aken S., Vaysberg M., Vysotskaia V.S., Walker M., Wu D.,
RA Yu G., Fraser C.M., Venter J.C., Davis R.W.;
RT "Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana.";
RL Nature 408:816-820(2000).
RN [4]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
CC -!- FUNCTION: May be involved in the CpXpG methylation and in gene
CC silencing. {ECO:0000250}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=a 2'-deoxycytidine in DNA + S-adenosyl-L-methionine = a 5-
CC methyl-2'-deoxycytidine in DNA + H(+) + S-adenosyl-L-homocysteine;
CC Xref=Rhea:RHEA:13681, Rhea:RHEA-COMP:11369, Rhea:RHEA-COMP:11370,
CC ChEBI:CHEBI:15378, ChEBI:CHEBI:57856, ChEBI:CHEBI:59789,
CC ChEBI:CHEBI:85452, ChEBI:CHEBI:85454; EC=2.1.1.37;
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000250}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=O49139-1; Sequence=Displayed;
CC Name=2;
CC IsoId=O49139-2; Sequence=VSP_019857, VSP_019858;
CC -!- TISSUE SPECIFICITY: Expressed in flowers. Not detected in leaves,
CC roots, seedlings and plants prior formation of flower buds.
CC {ECO:0000269|PubMed:9584105}.
CC -!- MISCELLANEOUS: [Isoform 2]: Alternative splice site used 50% of the
CC time in cv. Columbia. {ECO:0000305}.
CC -!- SIMILARITY: Belongs to the class I-like SAM-binding methyltransferase
CC superfamily. C5-methyltransferase family. {ECO:0000255|PROSITE-
CC ProRule:PRU01016}.
CC -!- CAUTION: Could be the product of a pseudogene. The protein is severely
CC truncated in several ecotypes and the gene even harbors a complete
CC retrotransposon in 3 ecotypes. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAA98912.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AF039364; AAB95485.1; -; mRNA.
DR EMBL; AF039366; AAC02659.1; -; Genomic_DNA.
DR EMBL; AF039367; AAC02660.1; -; Genomic_DNA.
DR EMBL; AF039368; AAC02661.1; -; Genomic_DNA.
DR EMBL; AF039369; AAC02662.1; -; Genomic_DNA.
DR EMBL; AF039370; AAC02663.1; -; Genomic_DNA.
DR EMBL; AF039371; AAC02665.1; -; Genomic_DNA.
DR EMBL; AF039372; AAC02667.1; -; Genomic_DNA.
DR EMBL; AF039373; AAC02668.1; -; Genomic_DNA.
DR EMBL; U53501; AAA98912.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AC011713; AAF14662.1; -; Genomic_DNA.
DR EMBL; CP002684; AEE36442.1; -; Genomic_DNA.
DR PIR; H96839; H96839.
DR RefSeq; NP_565245.1; NM_106722.2. [O49139-1]
DR AlphaFoldDB; O49139; -.
DR SMR; O49139; -.
DR STRING; 3702.AT1G80740.1; -.
DR REBASE; 3261; M.AthCMT1P.
DR PaxDb; O49139; -.
DR PRIDE; O49139; -.
DR EnsemblPlants; AT1G80740.1; AT1G80740.1; AT1G80740. [O49139-1]
DR GeneID; 844413; -.
DR Gramene; AT1G80740.1; AT1G80740.1; AT1G80740. [O49139-1]
DR KEGG; ath:AT1G80740; -.
DR Araport; AT1G80740; -.
DR TAIR; locus:2025787; AT1G80740.
DR eggNOG; ENOG502QW29; Eukaryota.
DR HOGENOM; CLU_004921_0_0_1; -.
DR InParanoid; O49139; -.
DR OMA; PPCDLYY; -.
DR OrthoDB; 898916at2759; -.
DR PhylomeDB; O49139; -.
DR Proteomes; UP000006548; Chromosome 1.
DR ExpressionAtlas; O49139; baseline and differential.
DR Genevisible; O49139; AT.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0003682; F:chromatin binding; IEA:InterPro.
DR GO; GO:0003886; F:DNA (cytosine-5-)-methyltransferase activity; IEA:UniProtKB-EC.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0006325; P:chromatin organization; IEA:UniProtKB-KW.
DR GO; GO:0009294; P:DNA-mediated transformation; IMP:TAIR.
DR Gene3D; 2.30.30.490; -; 1.
DR Gene3D; 3.40.50.150; -; 2.
DR InterPro; IPR001025; BAH_dom.
DR InterPro; IPR043151; BAH_sf.
DR InterPro; IPR001525; C5_MeTfrase.
DR InterPro; IPR016197; Chromo-like_dom_sf.
DR InterPro; IPR000953; Chromo/chromo_shadow_dom.
DR InterPro; IPR017984; Chromo_dom_subgr.
DR InterPro; IPR023780; Chromo_domain.
DR InterPro; IPR023779; Chromodomain_CS.
DR InterPro; IPR029063; SAM-dependent_MTases_sf.
DR Pfam; PF01426; BAH; 1.
DR Pfam; PF00385; Chromo; 1.
DR Pfam; PF00145; DNA_methylase; 1.
DR PRINTS; PR00105; C5METTRFRASE.
DR PRINTS; PR00504; CHROMODOMAIN.
DR SMART; SM00439; BAH; 1.
DR SMART; SM00298; CHROMO; 1.
DR SUPFAM; SSF53335; SSF53335; 1.
DR SUPFAM; SSF54160; SSF54160; 1.
DR PROSITE; PS51038; BAH; 1.
DR PROSITE; PS00598; CHROMO_1; 1.
DR PROSITE; PS50013; CHROMO_2; 1.
DR PROSITE; PS51679; SAM_MT_C5; 1.
PE 5: Uncertain;
KW Alternative splicing; Chromatin regulator; Coiled coil; DNA-binding;
KW Methyltransferase; Nucleus; Reference proteome; S-adenosyl-L-methionine;
KW Transcription; Transcription regulation; Transferase.
FT CHAIN 1..791
FT /note="Putative DNA (cytosine-5)-methyltransferase CMT1"
FT /id="PRO_0000246691"
FT DOMAIN 79..199
FT /note="BAH"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00370"
FT DOMAIN 225..768
FT /note="SAM-dependent MTase C5-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01016"
FT DOMAIN 339..404
FT /note="Chromo"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00053"
FT REGION 37..59
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COILED 308..333
FT /evidence="ECO:0000255"
FT ACT_SITE 417
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01016"
FT VAR_SEQ 568..570
FT /note="VTN -> CCR (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:9584105"
FT /id="VSP_019857"
FT VAR_SEQ 571..791
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|PubMed:9584105"
FT /id="VSP_019858"
FT VARIANT 148
FT /note="D -> G (in strain: cv. Metz-0)"
FT VARIANT 196
FT /note="T -> I (in strain: cv. Kl-0)"
FT VARIANT 198
FT /note="A -> T (in strain: cv. No-0)"
FT VARIANT 249..791
FT /note="Missing (in strain: cv. Metz-0)"
FT VARIANT 560
FT /note="D -> V (in strain: cv. Landsberg erecta, cv. No-0
FT and cv. RLD)"
FT VARIANT 561..791
FT /note="Missing (in strain: cv. Landsberg erecta, cv. No-0
FT and cv. RLD)"
FT VARIANT 604
FT /note="F -> C (in strain: cv. Nd-1, Nd-0 and cv. Kl-0)"
SQ SEQUENCE 791 AA; 89219 MW; A5ECFDBC274B215C CRC64;
MAARNKQKKR AEPESDLCFA GKPMSVVEST IRWPHRYQSK KTKLQAPTKK PANKGGKKED
EEIIKQAKCH FDKALVDGVL INLNDDVYVT GLPGKLKFIA KVIELFEADD GVPYCRFRWY
YRPEDTLIER FSHLVQPKRV FLSNDENDNP LTCIWSKVNI AKVPLPKITS RIEQRVIPPC
DYYYDMKYEV PYLNFTSADD GSDASSSLSS DSALNCFENL HKDEKFLLDL YSGCGAMSTG
FCMGASISGV KLITKWSVDI NKFACDSLKL NHPETEVRNE AAEDFLALLK EWKRLCEKFS
LVSSTEPVES ISELEDEEVE ENDDIDEAST GAELEPGEFE VEKFLGIMFG DPQGTGEKTL
QLMVRWKGYN SSYDTWEPYS GLGNCKEKLK EYVIDGFKSH LLPLPGTVYT VCGGPPCQGI
SGYNRYRNNE APLEDQKNQQ LLVFLDIIDF LKPNYVLMEN VVDLLRFSKG FLARHAVASF
VAMNYQTRLG MMAAGSYGLP QLRNRVFLWA AQPSEKLPPY PLPTHEVAKK FNTPKEFKDL
QVGRIQMEFL KLDNALTLAD AISDLPPVTN YVANDVMDYN DAAPKTEFEN FISLKRSETL
LPAFGGDPTR RLFDHQPLVL GDDDLERVSY IPKQKGANYR DMPGVLVHNN KAEINPRFRA
KLKSGKNVVP AYAISFIKGK SKKPFGRLWG DEIVNTVVTR AEPHNQCVIH PMQNRVLSVR
ENARLQGFPD CYKLCGTIKE KYIQVGNAVA VPVGVALGYA FGMASQGLTD DEPVIKLPFK
YPECMQAKDQ I
