DRM2_ORYSJ
ID DRM2_ORYSJ Reviewed; 598 AA.
AC Q10SU5; Q10SU3; Q10SU4; Q10SU6; Q8H7W0;
DT 02-NOV-2016, integrated into UniProtKB/Swiss-Prot.
DT 22-AUG-2006, sequence version 1.
DT 03-AUG-2022, entry version 85.
DE RecName: Full=DNA (cytosine-5)-methyltransferase DRM2 {ECO:0000305};
DE EC=2.1.1.37 {ECO:0000305};
DE AltName: Full=OsDRM2 {ECO:0000303|PubMed:22380881};
DE AltName: Full=Protein DOMAINS REARRANGED METHYLASE 2 {ECO:0000305};
GN Name=DRM2 {ECO:0000303|PubMed:22380881};
GN OrderedLocusNames=Os03g0110800 {ECO:0000312|EMBL:BAS81924.1},
GN LOC_Os03g02010 {ECO:0000312|EMBL:ABF93591.1};
GN ORFNames=OSJNBb0043C10.1 {ECO:0000312|EMBL:AAN61474.1};
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX NCBI_TaxID=39947;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, SUBCELLULAR LOCATION, AND
RP DISRUPTION PHENOTYPE.
RC STRAIN=cv. Nipponbare; TISSUE=Callus;
RX PubMed=22380881; DOI=10.1111/j.1365-313x.2012.04974.x;
RA Moritoh S., Eun C.H., Ono A., Asao H., Okano Y., Yamaguchi K.,
RA Shimatani Z., Koizumi A., Terada R.;
RT "Targeted disruption of an orthologue of DOMAINS REARRANGED METHYLASE 2,
RT OsDRM2, impairs the growth of rice plants by abnormal DNA methylation.";
RL Plant J. 71:85-98(2012).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16109971; DOI=10.1101/gr.3869505;
RG The rice chromosome 3 sequencing consortium;
RA Buell C.R., Yuan Q., Ouyang S., Liu J., Zhu W., Wang A., Maiti R., Haas B.,
RA Wortman J., Pertea M., Jones K.M., Kim M., Overton L., Tsitrin T.,
RA Fadrosh D., Bera J., Weaver B., Jin S., Johri S., Reardon M., Webb K.,
RA Hill J., Moffat K., Tallon L., Van Aken S., Lewis M., Utterback T.,
RA Feldblyum T., Zismann V., Iobst S., Hsiao J., de Vazeille A.R.,
RA Salzberg S.L., White O., Fraser C.M., Yu Y., Kim H., Rambo T., Currie J.,
RA Collura K., Kernodle-Thompson S., Wei F., Kudrna K., Ammiraju J.S.S.,
RA Luo M., Goicoechea J.L., Wing R.A., Henry D., Oates R., Palmer M.,
RA Pries G., Saski C., Simmons J., Soderlund C., Nelson W., de la Bastide M.,
RA Spiegel L., Nascimento L., Huang E., Preston R., Zutavern T., Palmer L.,
RA O'Shaughnessy A., Dike S., McCombie W.R., Minx P., Cordum H., Wilson R.,
RA Jin W., Lee H.R., Jiang J., Jackson S.;
RT "Sequence, annotation, and analysis of synteny between rice chromosome 3
RT and diverged grass species.";
RL Genome Res. 15:1284-1291(2005).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16100779; DOI=10.1038/nature03895;
RG International rice genome sequencing project (IRGSP);
RT "The map-based sequence of the rice genome.";
RL Nature 436:793-800(2005).
RN [4]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=18089549; DOI=10.1093/nar/gkm978;
RG The rice annotation project (RAP);
RT "The rice annotation project database (RAP-DB): 2008 update.";
RL Nucleic Acids Res. 36:D1028-D1033(2008).
RN [5]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using next
RT generation sequence and optical map data.";
RL Rice 6:4-4(2013).
RN [6]
RP INTERACTION WITH EIF4A, AND SUBCELLULAR LOCATION.
RX PubMed=23732981; DOI=10.1016/j.jmb.2013.05.021;
RA Dangwal M., Malik G., Kapoor S., Kapoor M.;
RT "De novo methyltransferase, OsDRM2, interacts with the ATP-dependent RNA
RT helicase, OseIF4A, in rice.";
RL J. Mol. Biol. 425:2853-2866(2013).
CC -!- FUNCTION: Involved in de novo DNA methylation. Required for CpG and
CC non-CpG methylation. Required for normal establishment and maintenance
CC of RNA-directed DNA methylation (RdDM) mediated by small interfering
CC RNAs (siRNAs). Regulates proper plant development in both vegetative
CC and reproductive stages through DNA methylation.
CC {ECO:0000269|PubMed:24280374}.
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:PRU01017};
CC -!- SUBUNIT: Interacts (via UBA domains) with EIF4A.
CC {ECO:0000269|PubMed:23732981}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000269|PubMed:22380881,
CC ECO:0000269|PubMed:23732981}.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=2;
CC Name=1;
CC IsoId=Q10SU5-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q10SU5-2; Sequence=VSP_058616;
CC -!- DISRUPTION PHENOTYPE: Pleiotropic developmental defects such as growth
CC defects, semi-dwarfed phenotype, reductions in tiller number, delayed
CC heading or no heading, abnormal panicle and spikelet morphology, and
CC complete sterility. {ECO:0000269|PubMed:24280374}.
CC -!- MISCELLANEOUS: [Isoform 2]: May be due to a competing donor splice
CC site. {ECO:0000305}.
CC -!- SIMILARITY: Belongs to the class I-like SAM-binding methyltransferase
CC superfamily. DRM-methyltransferase family. {ECO:0000255|PROSITE-
CC ProRule:PRU01017}.
CC -!- SEQUENCE CAUTION:
CC Sequence=AAN61474.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=ABF93592.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=ABF93593.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
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DR EMBL; AB524355; BAI66065.1; -; mRNA.
DR EMBL; AC105733; AAN61474.1; ALT_SEQ; Genomic_DNA.
DR EMBL; DP000009; ABF93590.1; -; Genomic_DNA.
DR EMBL; DP000009; ABF93591.1; -; Genomic_DNA.
DR EMBL; DP000009; ABF93592.1; ALT_SEQ; Genomic_DNA.
DR EMBL; DP000009; ABF93593.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AP008209; BAF10632.1; -; Genomic_DNA.
DR EMBL; AP014959; BAS81924.1; -; Genomic_DNA.
DR AlphaFoldDB; Q10SU5; -.
DR SMR; Q10SU5; -.
DR STRING; 4530.OS03T0110800-01; -.
DR REBASE; 11926; M.OsaDRM2.
DR PRIDE; Q10SU5; -.
DR EnsemblPlants; Os03t0110800-01; Os03t0110800-01; Os03g0110800. [Q10SU5-2]
DR Gramene; Os03t0110800-01; Os03t0110800-01; Os03g0110800. [Q10SU5-2]
DR eggNOG; ENOG502QVZV; Eukaryota.
DR OMA; FMGMGFP; -.
DR BRENDA; 2.1.1.37; 4460.
DR Proteomes; UP000000763; Chromosome 3.
DR Proteomes; UP000059680; Chromosome 3.
DR GO; GO:0005634; C:nucleus; IDA:UniProtKB.
DR GO; GO:0003886; F:DNA (cytosine-5-)-methyltransferase activity; IBA:GO_Central.
DR GO; GO:0003677; F:DNA binding; IEA:UniProtKB-KW.
DR GO; GO:0006306; P:DNA methylation; IBA:GO_Central.
DR Gene3D; 3.40.50.150; -; 2.
DR InterPro; IPR001525; C5_MeTfrase.
DR InterPro; IPR029063; SAM-dependent_MTases_sf.
DR InterPro; IPR030380; SAM_MeTfrase_DRM.
DR InterPro; IPR015940; UBA.
DR InterPro; IPR009060; UBA-like_sf.
DR Pfam; PF00145; DNA_methylase; 1.
DR SUPFAM; SSF46934; SSF46934; 1.
DR SUPFAM; SSF53335; SSF53335; 2.
DR PROSITE; PS51680; SAM_MT_DRM; 1.
DR PROSITE; PS50030; UBA; 1.
PE 1: Evidence at protein level;
KW Alternative splicing; DNA-binding; Methyltransferase; Nucleus;
KW Reference proteome; Repeat; S-adenosyl-L-methionine; Transferase.
FT CHAIN 1..598
FT /note="DNA (cytosine-5)-methyltransferase DRM2"
FT /id="PRO_0000438153"
FT DOMAIN 42..91
FT /note="UBA 1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00212"
FT DOMAIN 150..194
FT /note="UBA 2"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00212"
FT DOMAIN 272..598
FT /note="SAM-dependent MTase DRM-type"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01017"
FT REGION 1..49
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 114..146
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 227..252
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 179
FT /note="Missing (in isoform 2)"
FT /id="VSP_058616"
SQ SEQUENCE 598 AA; 66788 MW; 6E1227E830B6318B CRC64;
MVDWASDSDN DKFEWDTDGE AETSSAPALR NIDAPGPSTR LPQDANGKAN GSGALVAEFM
GMGFPKEMIL KAIKEIGDTD TEQLLELLLT YQAIGGDASV GNCSASACAP QTLEVDEEED
DTNWDEYDTA GNCDRTPHSD GSGDEDFFQE MSEKDEKMKS LVNMGFPEDE AKMAIDRCGL
DAPVAVLVDS IYASQEAGNG YSANLSDYED TEFSSFGGRK KTRFVDGSKK RKRYGSGPSG
NQVPFDGSHE EPMPLPNPMV GFSLPNERLR SVHRNLPDQA LGPPFFYYEN VALAPKGVWT
TISRFLYDIQ PEFVDSKYFC AAARKRGYIH NLPIENRSPV LPMPPKTISE AFPNTKRWWP
SWDPRRQFNC LQTCMASAKL TERIRCALGR FSDVPTPQVQ KYVLDECRKW NLVWVGKNKV
APLEPDEMEF LLGYPRNHTR GVSRTERYRA LGNSFQVDTV AYHLSVLRDL FPNGMNVLSL
FSGIGGAEVA LHRLGIHMKT VISVEKSEVN RTILKSWWDQ TQTGTLIEIA DVRHLTTERI
ETFIRRFGGF DLVIGGSPCN NLAGSNRHHR DGLEGEHSAL FYDYIRILEH VKATMSAV
