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Protein

DNA (cytosine-5)-methyltransferase 4

Gene

MET4

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Maintains chromatin CpG methylation that plays a role in genomic imprinting, regulation of embryogenesis and seed viability. Required for proper patterns of CG DNA methylation in dividing cells (By similarity).By similarity

Catalytic activityi

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei1183 – 11831PROSITE-ProRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Methyltransferase, Transferase

Keywords - Ligandi

DNA-binding, S-adenosyl-L-methionine

Enzyme and pathway databases

BioCyciARA:AT4G14140-MONOMER.
ARA:GQT-1086-MONOMER.

Protein family/group databases

REBASEi2839. M.AthMET2.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA (cytosine-5)-methyltransferase 4 (EC:2.1.1.37)
Alternative name(s):
DNA methyltransferase 4
DNA methyltransferase IIa
Short name:
DMT02
Short name:
MET02
Gene namesi
Name:MET4
Synonyms:DMT2, MET2, METIIa
Ordered Locus Names:At4g14140
ORF Names:dl3110w
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 4

Organism-specific databases

TAIRiAT4G14140.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 15191519DNA (cytosine-5)-methyltransferase 4PRO_0000430013Add
BLAST

Proteomic databases

PaxDbiO23273.
PRIDEiO23273.

Expressioni

Tissue specificityi

Expressed at low levels in vegetative and floral organs.1 Publication

Gene expression databases

ExpressionAtlasiO23273. baseline and differential.
GenevisibleiO23273. AT.

Interactioni

Protein-protein interaction databases

BioGridi12349. 1 interaction.
STRINGi3702.AT4G14140.2.

Structurei

3D structure databases

ProteinModelPortaliO23273.
SMRiO23273. Positions 67-245, 1081-1514.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini715 – 849135BAH 1PROSITE-ProRule annotationAdd
BLAST
Domaini916 – 1033118BAH 2PROSITE-ProRule annotationAdd
BLAST
Domaini1078 – 1512435SAM-dependent MTase C5-typePROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi632 – 67140Glu-richAdd
BLAST

Sequence similaritiesi

Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.PROSITE-ProRule annotation
Contains 2 BAH domains.PROSITE-ProRule annotation
Contains 1 SAM-dependent MTase C5-type domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiENOG410IF68. Eukaryota.
COG0270. LUCA.
HOGENOMiHOG000083447.
KOiK00558.
PhylomeDBiO23273.

Family and domain databases

Gene3Di3.40.50.150. 2 hits.
InterProiIPR001025. BAH_dom.
IPR018117. C5_DNA_meth_AS.
IPR001525. C5_MeTfrase.
IPR031303. C5_meth_CS.
IPR022702. Cytosine_MeTrfase1_RFD.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01426. BAH. 2 hits.
PF00145. DNA_methylase. 2 hits.
PF12047. DNMT1-RFD. 2 hits.
[Graphical view]
PRINTSiPR00105. C5METTRFRASE.
SMARTiSM00439. BAH. 2 hits.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 3 hits.
TIGRFAMsiTIGR00675. dcm. 1 hit.
PROSITEiPS51038. BAH. 2 hits.
PS00094. C5_MTASE_1. 1 hit.
PS00095. C5_MTASE_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. AlignAdd to basket

Isoform 1 (identifier: O23273-1) [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
MEMETKAGKQ KKRSVDSDDD VSKERRPKRA AACTNFKEKS LRISDKSETV
60 70 80 90 100
EAKKEQILAE EIVAIQLTSS LESNDDPRPN RRLTDFVLHD SEGVPQPVEM
110 120 130 140 150
LELGDIFIEG VVLPLGDEKK EEKGVRFQSF GRVENWNISG YEDGSPVIWI
160 170 180 190 200
STALADYDCR KPSKKYKKLY DYFFEKACAC VEVFKSLSKN PDTSLDELLA
210 220 230 240 250
AVSRSMSGSK IFSSGGAIQE FVISQGEFIY NQLAGLDETA KNHETCFVEN
260 270 280 290 300
RVLVSLRDHE SNKIHKALSN VALRIDESKV VTSDHLVDGA EDEDVKYAKL
310 320 330 340 350
IQEEEYRKSM ERSRNKRSST TSGGSSRFYI KISEDEIADD YPLPSYYKNT
360 370 380 390 400
KEETDELVLF EAGYEVDTRD LPCRTLHNWT LYNSDSRMIS LEVLPMRPCA
410 420 430 440 450
EIDVTVFGSG VVAEDDGSGF CLDDSESSTS TQSNDHDGMN IFLSQIKEWM
460 470 480 490 500
IEFGAEMIFV TLRTDMAWYR LGKPSKQYAP WFGTVMKTVR VGISIFNMLM
510 520 530 540 550
RESRVAKLSY ANVIKRLCGL EENDKAYISS KLLDVERYVV VHGQIILQLF
560 570 580 590 600
EEYPDKDIKR CPFVTSLASK MQDIHHTKWI IKKKKKILQK GKNLNPRAGI
610 620 630 640 650
APVVSRMKAM QATTTRLVNR IWGEFYSIYS PEVPSEAINA ENVEEEELEE
660 670 680 690 700
VEEEDENEED DPEENELEAV EIQNSPTPKK IKGISEDMEI KWDGEILGKT
710 720 730 740 750
SAGEPLYGRA FVGGDVVVVG SAVILEVDDQ DDTQLICFVE FMFESSNHSK
760 770 780 790 800
MLHGKLLQRG SETVLGMAAN ERELFLTNEC LTVQLKDIKG TVSLEIRSRL
810 820 830 840 850
WGHQYRKENI DVDKLDRARA EERKTNGLPT DYYCKSLYSP ERGGFFSLPR
860 870 880 890 900
NDMGLGSGFC SSCKIRENEE ERSKTKLNDS KTGFLSNGIE YHNGDFVYVL
910 920 930 940 950
PNYITKDGLK KGSRRTTLKC GRNVGLKAFV VCQLLDVIVL EESRKASKAS
960 970 980 990 1000
FQVKLTRFYR PEDISEEKAY ASDIQELYYS QDTYILPPEA IQGKCEVRKK
1010 1020 1030 1040 1050
SDMPLCREYP ILDHIFFCEV FYDSSTGYLK QFPANMKLKF STIKDETLLR
1060 1070 1080 1090 1100
EKKGKGVETG TSSGMLMKPD EVPKEKPLAT LDIFAGCGGL SHGLENAGVS
1110 1120 1130 1140 1150
TTKWAIEYEE PAGHAFKQNH PEATVFVDNC NVILRAIMEK CGDVDDCVST
1160 1170 1180 1190 1200
VEAAELAAKL DENQKSTLPL PGQVDFINGG PPCQGFSGMN RFSHGSWSKV
1210 1220 1230 1240 1250
QCEMILAFLS FADYFRPKYF LLENVKKFVT YNKGRTFQLT MASLLEMGYQ
1260 1270 1280 1290 1300
VRFGILEAGT YGVSQPRKRV IIWAASPEEV LPEWPEPMHV FDNPGSKISL
1310 1320 1330 1340 1350
PRGLRYDAGC NTKFGAPFRS ITVRDTIGDL PPVENGESKI NKEYGTTPAS
1360 1370 1380 1390 1400
WFQKKIRGNM SVLTDHICKG LNELNLIRCK KIPKRPGADW RDLPDENVTL
1410 1420 1430 1440 1450
SNGLVEKLRP LALSKTAKNH NEWKGLYGRL DWQGNLPISI TDPQPMGKVG
1460 1470 1480 1490 1500
MCFHPEQDRI ITVRECARSQ GFPDSYEFSG TTKHKHRQIG NAVPPPLAFA
1510
LGRKLKEALY LKSSLQHQS
Length:1,519
Mass (Da):171,586
Last modified:January 1, 1998 - v1
Checksum:i8BD760A15FA90DA4
GO
Isoform 2 (identifier: O23273-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1099-1135: VSTTKWAIEY...FVDNCNVILR → MYLYSHVMHI...KQRFLLTTAM

Note: Derived from EST data. No experimental confirmation available.
Show »
Length:1,545
Mass (Da):174,825
Checksum:iEF55DAD9992D7A1F
GO

Sequence cautioni

The sequence AAF14882.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1099 – 113537VSTTK…NVILR → MYLYSHVMHILLSSKHLKTF IKMHVLCNKVYLLQSGRSSM KSQLVMRLNKTILKQRFLLT TAM in isoform 2. CuratedVSP_055401Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF138283 Genomic DNA. Translation: AAF14882.1. Different initiation.
Z97335 Genomic DNA. Translation: CAB10193.1.
AL161538 Genomic DNA. Translation: CAB78456.1.
CP002687 Genomic DNA. Translation: AEE83379.1.
CP002687 Genomic DNA. Translation: AEE83380.1.
PIRiG71402.
RefSeqiNP_001190725.1. NM_001203796.1. [O23273-2]
NP_193150.1. NM_117491.1. [O23273-1]
UniGeneiAt.51020.

Genome annotation databases

EnsemblPlantsiAT4G14140.1; AT4G14140.1; AT4G14140. [O23273-1]
AT4G14140.2; AT4G14140.2; AT4G14140. [O23273-2]
GeneIDi827052.
KEGGiath:AT4G14140.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF138283 Genomic DNA. Translation: AAF14882.1. Different initiation.
Z97335 Genomic DNA. Translation: CAB10193.1.
AL161538 Genomic DNA. Translation: CAB78456.1.
CP002687 Genomic DNA. Translation: AEE83379.1.
CP002687 Genomic DNA. Translation: AEE83380.1.
PIRiG71402.
RefSeqiNP_001190725.1. NM_001203796.1. [O23273-2]
NP_193150.1. NM_117491.1. [O23273-1]
UniGeneiAt.51020.

3D structure databases

ProteinModelPortaliO23273.
SMRiO23273. Positions 67-245, 1081-1514.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi12349. 1 interaction.
STRINGi3702.AT4G14140.2.

Protein family/group databases

REBASEi2839. M.AthMET2.

Proteomic databases

PaxDbiO23273.
PRIDEiO23273.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT4G14140.1; AT4G14140.1; AT4G14140. [O23273-1]
AT4G14140.2; AT4G14140.2; AT4G14140. [O23273-2]
GeneIDi827052.
KEGGiath:AT4G14140.

Organism-specific databases

TAIRiAT4G14140.

Phylogenomic databases

eggNOGiENOG410IF68. Eukaryota.
COG0270. LUCA.
HOGENOMiHOG000083447.
KOiK00558.
PhylomeDBiO23273.

Enzyme and pathway databases

BioCyciARA:AT4G14140-MONOMER.
ARA:GQT-1086-MONOMER.

Miscellaneous databases

PROiO23273.

Gene expression databases

ExpressionAtlasiO23273. baseline and differential.
GenevisibleiO23273. AT.

Family and domain databases

Gene3Di3.40.50.150. 2 hits.
InterProiIPR001025. BAH_dom.
IPR018117. C5_DNA_meth_AS.
IPR001525. C5_MeTfrase.
IPR031303. C5_meth_CS.
IPR022702. Cytosine_MeTrfase1_RFD.
IPR029063. SAM-dependent_MTases.
[Graphical view]
PfamiPF01426. BAH. 2 hits.
PF00145. DNA_methylase. 2 hits.
PF12047. DNMT1-RFD. 2 hits.
[Graphical view]
PRINTSiPR00105. C5METTRFRASE.
SMARTiSM00439. BAH. 2 hits.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 3 hits.
TIGRFAMsiTIGR00675. dcm. 1 hit.
PROSITEiPS51038. BAH. 2 hits.
PS00094. C5_MTASE_1. 1 hit.
PS00095. C5_MTASE_2. 1 hit.
PS51679. SAM_MT_C5. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Multiple DNA methyltransferase genes in Arabidopsis thaliana."
    Genger R.K., Kovac K.A., Dennis E.S., Peacock W.J., Finnegan E.J.
    Plant Mol. Biol. 41:269-278(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], TISSUE SPECIFICITY, GENE FAMILY.
    Strain: cv. Columbia.
  2. "Analysis of 1.9 Mb of contiguous sequence from chromosome 4 of Arabidopsis thaliana."
    Bevan M., Bancroft I., Bent E., Love K., Goodman H.M., Dean C., Bergkamp R., Dirkse W., van Staveren M., Stiekema W., Drost L., Ridley P., Hudson S.-A., Patel K., Murphy G., Piffanelli P., Wedler H., Wedler E.
    , Wambutt R., Weitzenegger T., Pohl T., Terryn N., Gielen J., Villarroel R., De Clercq R., van Montagu M., Lecharny A., Aubourg S., Gy I., Kreis M., Lao N., Kavanagh T., Hempel S., Kotter P., Entian K.-D., Rieger M., Schaefer M., Funk B., Mueller-Auer S., Silvey M., James R., Monfort A., Pons A., Puigdomenech P., Douka A., Voukelatou E., Milioni D., Hatzopoulos P., Piravandi E., Obermaier B., Hilbert H., Duesterhoeft A., Moores T., Jones J.D.G., Eneva T., Palme K., Benes V., Rechmann S., Ansorge W., Cooke R., Berger C., Delseny M., Voet M., Volckaert G., Mewes H.-W., Klosterman S., Schueller C., Chalwatzis N.
    Nature 391:485-488(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  3. "Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana."
    Mayer K.F.X., Schueller C., Wambutt R., Murphy G., Volckaert G., Pohl T., Duesterhoeft A., Stiekema W., Entian K.-D., Terryn N., Harris B., Ansorge W., Brandt P., Grivell L.A., Rieger M., Weichselgartner M., de Simone V., Obermaier B.
    , Mache R., Mueller M., Kreis M., Delseny M., Puigdomenech P., Watson M., Schmidtheini T., Reichert B., Portetelle D., Perez-Alonso M., Boutry M., Bancroft I., Vos P., Hoheisel J., Zimmermann W., Wedler H., Ridley P., Langham S.-A., McCullagh B., Bilham L., Robben J., van der Schueren J., Grymonprez B., Chuang Y.-J., Vandenbussche F., Braeken M., Weltjens I., Voet M., Bastiaens I., Aert R., Defoor E., Weitzenegger T., Bothe G., Ramsperger U., Hilbert H., Braun M., Holzer E., Brandt A., Peters S., van Staveren M., Dirkse W., Mooijman P., Klein Lankhorst R., Rose M., Hauf J., Koetter P., Berneiser S., Hempel S., Feldpausch M., Lamberth S., Van den Daele H., De Keyser A., Buysshaert C., Gielen J., Villarroel R., De Clercq R., van Montagu M., Rogers J., Cronin A., Quail M.A., Bray-Allen S., Clark L., Doggett J., Hall S., Kay M., Lennard N., McLay K., Mayes R., Pettett A., Rajandream M.A., Lyne M., Benes V., Rechmann S., Borkova D., Bloecker H., Scharfe M., Grimm M., Loehnert T.-H., Dose S., de Haan M., Maarse A.C., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Fartmann B., Granderath K., Dauner D., Herzl A., Neumann S., Argiriou A., Vitale D., Liguori R., Piravandi E., Massenet O., Quigley F., Clabauld G., Muendlein A., Felber R., Schnabl S., Hiller R., Schmidt W., Lecharny A., Aubourg S., Chefdor F., Cooke R., Berger C., Monfort A., Casacuberta E., Gibbons T., Weber N., Vandenbol M., Bargues M., Terol J., Torres A., Perez-Perez A., Purnelle B., Bent E., Johnson S., Tacon D., Jesse T., Heijnen L., Schwarz S., Scholler P., Heber S., Francs P., Bielke C., Frishman D., Haase D., Lemcke K., Mewes H.-W., Stocker S., Zaccaria P., Bevan M., Wilson R.K., de la Bastide M., Habermann K., Parnell L., Dedhia N., Gnoj L., Schutz K., Huang E., Spiegel L., Sekhon M., Murray J., Sheet P., Cordes M., Abu-Threideh J., Stoneking T., Kalicki J., Graves T., Harmon G., Edwards J., Latreille P., Courtney L., Cloud J., Abbott A., Scott K., Johnson D., Minx P., Bentley D., Fulton B., Miller N., Greco T., Kemp K., Kramer J., Fulton L., Mardis E., Dante M., Pepin K., Hillier L.W., Nelson J., Spieth J., Ryan E., Andrews S., Geisel C., Layman D., Du H., Ali J., Berghoff A., Jones K., Drone K., Cotton M., Joshu C., Antonoiu B., Zidanic M., Strong C., Sun H., Lamar B., Yordan C., Ma P., Zhong J., Preston R., Vil D., Shekher M., Matero A., Shah R., Swaby I.K., O'Shaughnessy A., Rodriguez M., Hoffman J., Till S., Granat S., Shohdy N., Hasegawa A., Hameed A., Lodhi M., Johnson A., Chen E., Marra M.A., Martienssen R., McCombie W.R.
    Nature 402:769-777(1999) [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.
  5. Cited for: GENE FAMILY, NOMENCLATURE.

Entry informationi

Entry nameiDNMT4_ARATH
AccessioniPrimary (citable) accession number: O23273
Secondary accession number(s): F4JUL5, Q9SEG3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 3, 2014
Last sequence update: January 1, 1998
Last modified: June 8, 2016
This is version 118 of the entry and version 1 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

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 one 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.