ID Q588C4_DANRE Unreviewed; 731 AA.
AC Q588C4; A0A8M1N603;
DT 10-MAY-2005, integrated into UniProtKB/TrEMBL.
DT 10-MAY-2005, sequence version 1.
DT 27-MAR-2024, entry version 119.
DE RecName: Full=DNA (cytosine-5-)-methyltransferase {ECO:0000256|ARBA:ARBA00011975};
DE EC=2.1.1.37 {ECO:0000256|ARBA:ARBA00011975};
GN Name=dnmt3ab {ECO:0000313|Ensembl:ENSDARP00000108609,
GN ECO:0000313|RefSeq:NP_001018150.1, ECO:0000313|RefSeq:XP_009291475.1,
GN ECO:0000313|ZFIN:ZDB-GENE-050314-3};
GN Synonyms=dnmt3a1 {ECO:0000313|RefSeq:NP_001018150.1,
GN ECO:0000313|RefSeq:XP_009291475.1}, dnmt6
GN {ECO:0000313|RefSeq:NP_001018150.1,
GN ECO:0000313|RefSeq:XP_009291475.1};
OS Danio rerio (Zebrafish) (Brachydanio rerio).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
OC Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes;
OC Danionidae; Danioninae; Danio.
OX NCBI_TaxID=7955 {ECO:0000313|EMBL:BAD95480.1};
RN [1] {ECO:0000313|EMBL:BAD95480.1, ECO:0000313|RefSeq:NP_001018150.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1};
RX PubMed=15937923; DOI=10.1002/dvdy.20455;
RA Shimoda N., Yamakoshi K., Miyake A., Takeda H.;
RT "Identification of a gene required for de novo DNA methylation of the
RT zebrafish no tail gene.";
RL Dev. Dyn. 233:1509-1516(2005).
RN [2] {ECO:0000313|RefSeq:NP_001018150.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1};
RX PubMed=21258815;
RA Smith T.H., Collins T.M., McGowan R.A.;
RT "Expression of the dnmt3 genes in zebrafish development: similarity to
RT Dnmt3a and Dnmt3b.";
RL Dev. Genes Evol. 220:347-353(2011).
RN [3] {ECO:0000313|RefSeq:NP_001018150.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1};
RX PubMed=22450363;
RA Campos C., Valente L.M., Fernandes J.M.;
RT "Molecular evolution of zebrafish dnmt3 genes and thermal plasticity of
RT their expression during embryonic development.";
RL Gene 500:93-100(2012).
RN [4] {ECO:0000313|RefSeq:NP_001018150.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1};
RX PubMed=23663776;
RA Potok M.E., Nix D.A., Parnell T.J., Cairns B.R.;
RT "Reprogramming the maternal zebrafish genome after fertilization to match
RT the paternal methylation pattern.";
RL Cell 153:759-772(2013).
RN [5] {ECO:0000313|Ensembl:ENSDARP00000108609, ECO:0000313|Proteomes:UP000000437}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Tuebingen {ECO:0000313|Ensembl:ENSDARP00000108609};
RX PubMed=23594743; DOI=10.1038/nature12111;
RG Genome Reference Consortium Zebrafish;
RA Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M.,
RA Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I.,
RA Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.,
RA White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y.,
RA Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B.,
RA Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S.,
RA Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M.,
RA Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J.,
RA Clee C., Oliver K., Clark R., Riddle C., Elliot D., Eliott D.,
RA Threadgold G., Harden G., Ware D., Begum S., Mortimore B., Mortimer B.,
RA Kerry G., Heath P., Phillimore B., Tracey A., Corby N., Dunn M.,
RA Johnson C., Wood J., Clark S., Pelan S., Griffiths G., Smith M.,
RA Glithero R., Howden P., Barker N., Lloyd C., Stevens C., Harley J.,
RA Holt K., Panagiotidis G., Lovell J., Beasley H., Henderson C., Gordon D.,
RA Auger K., Wright D., Collins J., Raisen C., Dyer L., Leung K.,
RA Robertson L., Ambridge K., Leongamornlert D., McGuire S., Gilderthorp R.,
RA Griffiths C., Manthravadi D., Nichol S., Barker G., Whitehead S., Kay M.,
RA Brown J., Murnane C., Gray E., Humphries M., Sycamore N., Barker D.,
RA Saunders D., Wallis J., Babbage A., Hammond S., Mashreghi-Mohammadi M.,
RA Barr L., Martin S., Wray P., Ellington A., Matthews N., Ellwood M.,
RA Woodmansey R., Clark G., Cooper J., Cooper J., Tromans A., Grafham D.,
RA Skuce C., Pandian R., Andrews R., Harrison E., Kimberley A., Garnett J.,
RA Fosker N., Hall R., Garner P., Kelly D., Bird C., Palmer S., Gehring I.,
RA Berger A., Dooley C.M., Ersan-Urun Z., Eser C., Geiger H., Geisler M.,
RA Karotki L., Kirn A., Konantz J., Konantz M., Oberlander M.,
RA Rudolph-Geiger S., Teucke M., Lanz C., Raddatz G., Osoegawa K., Zhu B.,
RA Rapp A., Widaa S., Langford C., Yang F., Schuster S.C., Carter N.P.,
RA Harrow J., Ning Z., Herrero J., Searle S.M., Enright A., Geisler R.,
RA Plasterk R.H., Lee C., Westerfield M., de Jong P.J., Zon L.I.,
RA Postlethwait J.H., Nusslein-Volhard C., Hubbard T.J., Roest Crollius H.,
RA Rogers J., Stemple D.L.;
RT "The zebrafish reference genome sequence and its relationship to the human
RT genome.";
RL Nature 496:498-503(2013).
RN [6] {ECO:0000313|RefSeq:NP_001018150.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1};
RX PubMed=24123478;
RA Seritrakul P., Gross J.M.;
RT "Expression of the de novo DNA methyltransferases (dnmt3 - dnmt8) during
RT zebrafish lens development.";
RL Dev. Dyn. 243:350-356(2014).
RN [7] {ECO:0000313|Ensembl:ENSDARP00000108609}
RP IDENTIFICATION.
RC STRAIN=Tuebingen {ECO:0000313|Ensembl:ENSDARP00000108609};
RG Ensembl;
RL Submitted (OCT-2014) to the EMBL/GenBank/DDBJ databases.
RN [8] {ECO:0000313|RefSeq:NP_001018150.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1};
RX PubMed=28859886;
RA Wirbisky-Hershberger S.E., Sanchez O.F., Horzmann K.A., Thanki D., Yuan C.,
RA Freeman J.L.;
RT "Atrazine exposure decreases the activity of DNMTs, global DNA methylation
RT levels, and dnmt expression.";
RL Food Chem. Toxicol. 109:727-734(2017).
RN [9] {ECO:0000313|RefSeq:NP_001018150.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1};
RX PubMed=28583304;
RA Knecht A.L., Truong L., Marvel S.W., Reif D.M., Garcia A., Lu C.,
RA Simonich M.T., Teeguarden J.G., Tanguay R.L.;
RT "Transgenerational inheritance of neurobehavioral and physiological
RT deficits from developmental exposure to benzo[a]pyrene in zebrafish.";
RL Toxicol. Appl. Pharmacol. 329:148-157(2017).
RN [10] {ECO:0000313|RefSeq:NP_001018150.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1};
RX PubMed=29456083;
RA Murphy P.J., Wu S.F., James C.R., Wike C.L., Cairns B.R.;
RT "Placeholder Nucleosomes Underlie Germline-to-Embryo DNA Methylation
RT Reprogramming.";
RL Cell 172:993-1006(2018).
RN [11] {ECO:0000313|RefSeq:NP_001018150.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1};
RX PubMed=29634367;
RA Wang L., Liu X., Wang H., Yuan H., Chen S., Chen Z., de The H., Zhou J.,
RA Zhu J.;
RT "RNF4 regulates zebrafish granulopoiesis through the DNMT1-C/EBPalpha
RT axis.";
RL FASEB J. 32:4930-4940(2018).
RN [12] {ECO:0000313|RefSeq:NP_001018150.1}
RP NUCLEOTIDE SEQUENCE.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1};
RX PubMed=30605867;
RA Alfonso S., Blanc M., Joassard L., Keiter S.H., Munschy C., Loizeau V.,
RA Begout M.L., Cousin X.;
RT "Examining multi- and transgenerational behavioral and molecular
RT alterations resulting from parental exposure to an environmental PCB and
RT PBDE mixture.";
RL Aquat. Toxicol. 208:29-38(2019).
RN [13] {ECO:0000313|RefSeq:NP_001018150.1, ECO:0000313|RefSeq:XP_009291475.1}
RP IDENTIFICATION.
RC STRAIN=Tuebingen {ECO:0000313|RefSeq:NP_001018150.1,
RC ECO:0000313|RefSeq:XP_009291475.1};
RG RefSeq;
RL Submitted (NOV-2023) to UniProtKB.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000256|ARBA:ARBA00004123}.
CC -!- SIMILARITY: Belongs to the class I-like SAM-binding methyltransferase
CC superfamily. C5-methyltransferase family. {ECO:0000256|PROSITE-
CC ProRule:PRU01016}.
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DR EMBL; BX571720; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; CR388401; -; NOT_ANNOTATED_CDS; Genomic_DNA.
DR EMBL; AB196917; BAD95480.1; -; mRNA.
DR RefSeq; NP_001018150.1; NM_001018140.2.
DR RefSeq; XP_009291475.1; XM_009293200.3.
DR RefSeq; XP_009291477.1; XM_009293202.2.
DR REBASE; 11769; M.DreLDnmt6P.
DR Ensembl; ENSDART00000126823.3; ENSDARP00000108609.2; ENSDARG00000015566.12.
DR GeneID; 553189; -.
DR KEGG; dre:553189; -.
DR AGR; ZFIN:ZDB-GENE-050314-3; -.
DR CTD; 553189; -.
DR ZFIN; ZDB-GENE-050314-3; dnmt3ab.
DR HOGENOM; CLU_006958_9_1_1; -.
DR OrthoDB; 2904336at2759; -.
DR Proteomes; UP000000437; Chromosome 17.
DR Bgee; ENSDARG00000015566; Expressed in brain and 29 other cell types or tissues.
DR GO; GO:0005737; C:cytoplasm; IBA:GO_Central.
DR GO; GO:0005634; C:nucleus; IBA:GO_Central.
DR GO; GO:0003886; F:DNA (cytosine-5-)-methyltransferase activity; IEA:UniProtKB-EC.
DR GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR GO; GO:0032776; P:DNA methylation on cytosine; IBA:GO_Central.
DR GO; GO:0045892; P:negative regulation of DNA-templated transcription; IBA:GO_Central.
DR CDD; cd11729; ADDz_Dnmt3a; 1.
DR CDD; cd20154; PWWP_DNMT3A; 1.
DR Gene3D; 2.30.30.140; -; 1.
DR Gene3D; 1.10.720.50; PWWP, helical domain; 1.
DR Gene3D; 3.40.50.150; Vaccinia Virus protein VP39; 2.
DR InterPro; IPR025766; ADD.
DR InterPro; IPR044108; ADD_DNMT3A.
DR InterPro; IPR018117; C5_DNA_meth_AS.
DR InterPro; IPR001525; C5_MeTfrase.
DR InterPro; IPR040552; DNMT3_ADD_GATA1-like.
DR InterPro; IPR049554; DNMT3_ADD_PHD.
DR InterPro; IPR000313; PWWP_dom.
DR InterPro; IPR029063; SAM-dependent_MTases_sf.
DR PANTHER; PTHR23068:SF10; DNA (CYTOSINE-5)-METHYLTRANSFERASE 3A; 1.
DR PANTHER; PTHR23068; DNA CYTOSINE-5- -METHYLTRANSFERASE 3-RELATED; 1.
DR Pfam; PF17980; ADD_DNMT3; 1.
DR Pfam; PF21255; ADDz_Dnmt3b; 1.
DR Pfam; PF00145; DNA_methylase; 1.
DR Pfam; PF00855; PWWP; 1.
DR SMART; SM00293; PWWP; 1.
DR SUPFAM; SSF81995; beta-sandwich domain of Sec23/24; 1.
DR SUPFAM; SSF53335; S-adenosyl-L-methionine-dependent methyltransferases; 1.
DR SUPFAM; SSF63748; Tudor/PWWP/MBT; 1.
DR PROSITE; PS51533; ADD; 1.
DR PROSITE; PS00094; C5_MTASE_1; 1.
DR PROSITE; PS50812; PWWP; 1.
DR PROSITE; PS51679; SAM_MT_C5; 1.
PE 1: Evidence at protein level;
KW Metal-binding {ECO:0000256|ARBA:ARBA00022723};
KW Methyltransferase {ECO:0000256|ARBA:ARBA00022603, ECO:0000256|PROSITE-
KW ProRule:PRU01016}; Nucleus {ECO:0000256|ARBA:ARBA00023242};
KW Proteomics identification {ECO:0007829|PeptideAtlas:Q588C4};
KW Reference proteome {ECO:0000313|Proteomes:UP000000437};
KW Repressor {ECO:0000256|ARBA:ARBA00022491};
KW S-adenosyl-L-methionine {ECO:0000256|ARBA:ARBA00022691,
KW ECO:0000256|PROSITE-ProRule:PRU01016};
KW Transferase {ECO:0000256|ARBA:ARBA00022679, ECO:0000256|PROSITE-
KW ProRule:PRU01016}; Zinc {ECO:0000256|ARBA:ARBA00022833};
KW Zinc-finger {ECO:0000256|ARBA:ARBA00022771}.
FT DOMAIN 114..172
FT /note="PWWP"
FT /evidence="ECO:0000259|PROSITE:PS50812"
FT DOMAIN 299..431
FT /note="PHD-type"
FT /evidence="ECO:0000259|PROSITE:PS51533"
FT REGION 1..108
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 1..16
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 21..43
FT /note="Pro residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 65..86
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT ACT_SITE 527
FT /evidence="ECO:0000256|PROSITE-ProRule:PRU01016"
SQ SEQUENCE 731 AA; 82981 MW; EF4DB9EA8DA02DC3 CRC64;
MNSMEDHGEV ESEPKKDVIT VPLLFPPPMP PTPPTPPMQQ QPPQPQAQHQ TNLKPQPSPQ
QQPPPFQQQQ QQQPTDPASP TVATTPEPVS IGDGDKTSPK STESEYEDGR GFGINELVWG
KLRGYSWWPG RVVSWRMTRR SPAAEGTRWV TWFGDGKFSV VCVEKLLPLS SFHNAFHQPT
YNKQPMYKKA IFEVLQVAST RAGKTFLSCP ASDDTDSSKL VDVENKKMIE WAMSGFQPTG
PKGLDPPESE PYEMCEWVEP EAASYLPPPA KKPRKSTVTE KPKVKEMIDE RTRERLVFDV
RQKCRNIEDI CISCGSLYVS LEHPLFIGGM CQSCTNCFLE CAYQYDDDGY QSYCTICCGG
REVLMCGNNN CCRCFCVECV DLLVGPGAAQ AAIKEDPWNC YMCGLKTQYG LLERRADWPC
RLQHFFANNH DQEFEPPRLY PPVLAENRKP IRVLSLFDGI ATGLLVLREL GIQVERYVAS
EVCEDSITVG IVRHQGRIMY VGDVRQLTRK NIQEWGPFDL VIGGSPCNDL SIVNPARKGL
YEGTGRLFFE FYRLLHEARP KEGDTRPFFW LFENVVAMGV SDKRDISRFL ECNPVMIDAK
EVSAAHRARY FWGNLPGMNR PMSAMCTDKL DLQDCLEHGR TAKFGKVRTI TTRSNSIKQG
KDQHFPVFMN DKEDILWCTE MERVFGFPVH YTDVSNMSRL ARQRLLGRSW SVPVIRHLFA
PLKEYFACVG T
//
