DNMT2_ARATH
ID DNMT2_ARATH Reviewed; 1512 AA.
AC Q9M0S8;
DT 03-SEP-2014, integrated into UniProtKB/Swiss-Prot.
DT 01-OCT-2000, sequence version 1.
DT 03-AUG-2022, entry version 145.
DE RecName: Full=DNA (cytosine-5)-methyltransferase 2;
DE EC=2.1.1.37;
DE AltName: Full=DNA methyltransferase 2;
DE AltName: Full=DNA methyltransferase IIb;
GN Name=MET2; Synonyms=METIIb; OrderedLocusNames=At4g08990; ORFNames=F23J3.20;
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 [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617198; DOI=10.1038/47134;
RA Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T.,
RA Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B.,
RA Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M.,
RA de Simone V., Obermaier B., Mache R., Mueller M., Kreis M., Delseny M.,
RA Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D.,
RA Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J.,
RA Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B.,
RA Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J.,
RA Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R.,
RA Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M.,
RA Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P.,
RA Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S.,
RA Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C.,
RA Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J.,
RA Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S.,
RA Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A.,
RA Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M.,
RA Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M.,
RA Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D.,
RA Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E.,
RA Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S.,
RA Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R.,
RA Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M.,
RA Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E.,
RA Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P.,
RA Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K.,
RA Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K.,
RA de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K.,
RA Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M.,
RA Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G.,
RA Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K.,
RA Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K.,
RA Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W.,
RA Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H.,
RA Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B.,
RA Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J.,
RA Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K.,
RA O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N.,
RA Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A.,
RA Martienssen R., McCombie W.R.;
RT "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana.";
RL Nature 402:769-777(1999).
RN [2]
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).
RN [3]
RP TISSUE SPECIFICITY, AND GENE FAMILY.
RC STRAIN=cv. Columbia;
RX PubMed=10579493; DOI=10.1023/a:1006347010369;
RA Genger R.K., Kovac K.A., Dennis E.S., Peacock W.J., Finnegan E.J.;
RT "Multiple DNA methyltransferase genes in Arabidopsis thaliana.";
RL Plant Mol. Biol. 41:269-278(1999).
RN [4]
RP GENE FAMILY, AND NOMENCLATURE.
RX PubMed=21257907; DOI=10.1073/pnas.1019273108;
RA Hsieh T.-F., Shin J., Uzawa R., Silva P., Cohen S., Bauer M.J.,
RA Hashimoto M., Kirkbride R.C., Harada J.J., Zilberman D., Fischer R.L.;
RT "Regulation of imprinted gene expression in Arabidopsis endosperm.";
RL Proc. Natl. Acad. Sci. U.S.A. 108:1755-1762(2011).
CC -!- FUNCTION: Maintains chromatin CpG methylation that plays a role in
CC genomic imprinting, regulation of embryogenesis and seed viability.
CC Required for proper patterns of CG DNA methylation in dividing cells
CC (By similarity). {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 Evidence={ECO:0000255|PROSITE-ProRule:PRU10018};
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000305}.
CC -!- TISSUE SPECIFICITY: Expressed at low levels in vegetative and floral
CC organs. {ECO:0000269|PubMed:10579493}.
CC -!- SIMILARITY: Belongs to the class I-like SAM-binding methyltransferase
CC superfamily. C5-methyltransferase family. {ECO:0000255|PROSITE-
CC ProRule:PRU01016}.
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DR EMBL; AL161513; CAB78023.1; -; Genomic_DNA.
DR EMBL; CP002687; AEE82708.1; -; Genomic_DNA.
DR PIR; G85090; G85090.
DR RefSeq; NP_192638.1; NM_116968.1.
DR AlphaFoldDB; Q9M0S8; -.
DR SMR; Q9M0S8; -.
DR STRING; 3702.AT4G08990.1; -.
DR REBASE; 35200; M.AthMET2b.
DR iPTMnet; Q9M0S8; -.
DR PaxDb; Q9M0S8; -.
DR PRIDE; Q9M0S8; -.
DR EnsemblPlants; AT4G08990.1; AT4G08990.1; AT4G08990.
DR GeneID; 826477; -.
DR Gramene; AT4G08990.1; AT4G08990.1; AT4G08990.
DR KEGG; ath:AT4G08990; -.
DR Araport; AT4G08990; -.
DR TAIR; locus:2122313; AT4G08990.
DR eggNOG; ENOG502QPKK; Eukaryota.
DR HOGENOM; CLU_002247_0_0_1; -.
DR InParanoid; Q9M0S8; -.
DR OMA; YNQEMDE; -.
DR OrthoDB; 898916at2759; -.
DR PhylomeDB; Q9M0S8; -.
DR PRO; PR:Q9M0S8; -.
DR Proteomes; UP000006548; Chromosome 4.
DR ExpressionAtlas; Q9M0S8; baseline and differential.
DR Genevisible; Q9M0S8; 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 Gene3D; 2.30.30.490; -; 2.
DR Gene3D; 3.40.50.150; -; 1.
DR InterPro; IPR001025; BAH_dom.
DR InterPro; IPR043151; BAH_sf.
DR InterPro; IPR018117; C5_DNA_meth_AS.
DR InterPro; IPR001525; C5_MeTfrase.
DR InterPro; IPR031303; C5_meth_CS.
DR InterPro; IPR022702; Cytosine_MeTrfase1_RFD.
DR InterPro; IPR017198; DNMT1-like.
DR InterPro; IPR029063; SAM-dependent_MTases_sf.
DR Pfam; PF01426; BAH; 2.
DR Pfam; PF00145; DNA_methylase; 2.
DR Pfam; PF12047; DNMT1-RFD; 2.
DR PIRSF; PIRSF037404; DNMT1; 1.
DR PRINTS; PR00105; C5METTRFRASE.
DR SMART; SM00439; BAH; 2.
DR SUPFAM; SSF53335; SSF53335; 1.
DR TIGRFAMs; TIGR00675; dcm; 1.
DR PROSITE; PS51038; BAH; 2.
DR PROSITE; PS00094; C5_MTASE_1; 1.
DR PROSITE; PS00095; C5_MTASE_2; 1.
DR PROSITE; PS51679; SAM_MT_C5; 1.
PE 2: Evidence at transcript level;
KW Chromatin regulator; DNA-binding; Methyltransferase; Nucleus;
KW Reference proteome; Repeat; S-adenosyl-L-methionine; Transferase.
FT CHAIN 1..1512
FT /note="DNA (cytosine-5)-methyltransferase 2"
FT /id="PRO_0000430011"
FT DOMAIN 707..841
FT /note="BAH 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00370"
FT DOMAIN 909..1026
FT /note="BAH 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00370"
FT DOMAIN 1071..1505
FT /note="SAM-dependent MTase C5-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01016"
FT REGION 1..35
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 634..678
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 635..660
FT /note="Acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 661..678
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT ACT_SITE 1176
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01016,
FT ECO:0000255|PROSITE-ProRule:PRU10018"
SQ SEQUENCE 1512 AA; 171155 MW; D6D9BCC70DFAC0AE CRC64;
METKVGKQKK RSVDSNDDVS KERRPKRAAA CRNFKEKPLR ISDKSETVEA KKEQNVVEEI
VAIQLTSSLE SNDDPRPNRR LTDFVLHNSD GVPQPVEMLE LGDIFLEGVV LPLGDDKNEE
KGVRFQSFGR VENWNISGYE DGSPGIWIST ALADYDCRKP ASKYKKIYDY FFEKACACVE
VFKSLSKNPD TSLDELLAAV ARSMSGSKIF SSGGAIQEFV ISQGEFIYNQ LAGLDETAKN
HETCFVENSV LVSLRDHESS KIHKALSNVA LRIDESQLVK SDHLVDGAEA EDVRYAKLIQ
EEEYRISMER SRNKRSSTTS ASNKFYIKIN EHEIANDYPL PSYYKNTKEE TDELLLFEPG
YEVDTRDLPC RTLHNWALYN SDSRMISLEV LPMRPCAEID VTVFGSGVVA EDDGSGFCLD
DSESSTSTQS NVHDGMNIFL SQIKEWMIEF GAEMIFVTLR TDMAWYRLGK PSKQYAPWFE
TVMKTVRVAI SIFNMLMRES RVAKLSYANV IKRLCGLEEN DKAYISSKLL DVERYVVVHG
QIILQLFEEY PDKDIKRCPF VTGLASKMQD IHHTKWIIKR KKKILQKGKN LNPRAGLAHV
VTRMKPMQAT TTRLVNRIWG EFYSIYSPEV PSEAIHEVEE EEIEEDEEED ENEEDDIEEE
AVEVQKSHTP KKSRGNSEDM EIKWNGEILG ETSDGEPLYG RALVGGETVA VGSAVILEVD
DPDETPAIYF VEFMFESSDQ CKMLHGKLLQ RGSETVIGTA ANERELFLTN ECLTVHLKDI
KGTVSLDIRS RPWGHQYRKE NLVVDKLDRA RAEERKANGL PTEYYCKSLY SPERGGFFSL
PRNDIGLGSG FCSSCKIKEE EEERSKTKLN ISKTGVFSNG IEYYNGDFVY VLPNYITKDG
LKKGTSRRTT LKCGRNVGLK AFVVCQLLDV IVLEESRKAS NASFQVKLTR FYRPEDISEE
KAYASDIQEL YYSHDTYILP PEALQGKCEV RKKNDMPLCR EYPILDHIFF CEVFYDSSTG
YLKQFPANMK LKFSTIKDET LLREKKGKGV ETGTSSGILM KPDEVPKEMR LATLDIFAGC
GGLSHGLEKA GVSNTKWAIE YEEPAGHAFK QNHPEATVFV DNCNVILRAI MEKCGDVDDC
VSTVEAAELV AKLDENQKST LPLPGQADFI SGGPPCQGFS GMNRFSDGSW SKVQCEMILA
FLSFADYFRP KYFLLENVKK FVTYNKGRTF QLTMASLLEI GYQVRFGILE AGTYGVSQPR
KRVIIWAASP EEVLPEWPEP MHVFDNPGSK ISLPRGLHYD TVRNTKFGAP FRSITVRDTI
GDLPLVENGE SKINKEYRTT PVSWFQKKIR GNMSVLTDHI CKGLNELNLI RCKKIPKRPG
ADWRDLPDEN VTLSNGLVEK LRPLALSKTA KNHNEWKGLY GRLDWQGNLP ISITDPQPMG
KVGMCFHPEQ DRIITVRECA RSQGFPDSYE FSGTTKHKHR QIGNAVPPPL AFALGRKLKE
ALYLKSSLQH QS
