ID D4A9W8_RAT Unreviewed; 549 AA.
AC D4A9W8;
DT 20-APR-2010, integrated into UniProtKB/TrEMBL.
DT 25-MAY-2022, sequence version 4.
DT 27-MAR-2024, entry version 87.
DE RecName: Full=Methyl-CpG-binding domain protein 4 {ECO:0000256|PIRNR:PIRNR038005};
DE EC=3.2.2.- {ECO:0000256|PIRNR:PIRNR038005};
GN Name=Mbd4 {ECO:0000313|Ensembl:ENSRNOP00000014537.7,
GN ECO:0000313|RGD:1585874};
OS Rattus norvegicus (Rat).
OC Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC Murinae; Rattus.
OX NCBI_TaxID=10116 {ECO:0000313|Ensembl:ENSRNOP00000014537.7, ECO:0000313|Proteomes:UP000002494};
RN [1] {ECO:0000313|Ensembl:ENSRNOP00000014537.7, ECO:0000313|Proteomes:UP000002494}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Brown Norway {ECO:0000313|Ensembl:ENSRNOP00000014537.7,
RC ECO:0000313|Proteomes:UP000002494};
RX PubMed=15057822; DOI=10.1038/nature02426;
RG Rat Genome Sequencing Project Consortium;
RA Gibbs R.A., Weinstock G.M., Metzker M.L., Muzny D.M., Sodergren E.J.,
RA Scherer S., Scott G., Steffen D., Worley K.C., Burch P.E., Okwuonu G.,
RA Hines S., Lewis L., Deramo C., Delgado O., Dugan-Rocha S., Miner G.,
RA Morgan M., Hawes A., Gill R., Holt R.A., Adams M.D., Amanatides P.G.,
RA Baden-Tillson H., Barnstead M., Chin S., Evans C.A., Ferriera S.,
RA Fosler C., Glodek A., Gu Z., Jennings D., Kraft C.L., Nguyen T.,
RA Pfannkoch C.M., Sitter C., Sutton G.G., Venter J.C., Woodage T., Smith D.,
RA Lee H.-M., Gustafson E., Cahill P., Kana A., Doucette-Stamm L.,
RA Weinstock K., Fechtel K., Weiss R.B., Dunn D.M., Green E.D.,
RA Blakesley R.W., Bouffard G.G., De Jong P.J., Osoegawa K., Zhu B., Marra M.,
RA Schein J., Bosdet I., Fjell C., Jones S., Krzywinski M., Mathewson C.,
RA Siddiqui A., Wye N., McPherson J., Zhao S., Fraser C.M., Shetty J.,
RA Shatsman S., Geer K., Chen Y., Abramzon S., Nierman W.C., Havlak P.H.,
RA Chen R., Durbin K.J., Egan A., Ren Y., Song X.-Z., Li B., Liu Y., Qin X.,
RA Cawley S., Cooney A.J., D'Souza L.M., Martin K., Wu J.Q.,
RA Gonzalez-Garay M.L., Jackson A.R., Kalafus K.J., McLeod M.P.,
RA Milosavljevic A., Virk D., Volkov A., Wheeler D.A., Zhang Z., Bailey J.A.,
RA Eichler E.E., Tuzun E., Birney E., Mongin E., Ureta-Vidal A., Woodwark C.,
RA Zdobnov E., Bork P., Suyama M., Torrents D., Alexandersson M., Trask B.J.,
RA Young J.M., Huang H., Wang H., Xing H., Daniels S., Gietzen D., Schmidt J.,
RA Stevens K., Vitt U., Wingrove J., Camara F., Mar Alba M., Abril J.F.,
RA Guigo R., Smit A., Dubchak I., Rubin E.M., Couronne O., Poliakov A.,
RA Huebner N., Ganten D., Goesele C., Hummel O., Kreitler T., Lee Y.-A.,
RA Monti J., Schulz H., Zimdahl H., Himmelbauer H., Lehrach H., Jacob H.J.,
RA Bromberg S., Gullings-Handley J., Jensen-Seaman M.I., Kwitek A.E.,
RA Lazar J., Pasko D., Tonellato P.J., Twigger S., Ponting C.P., Duarte J.M.,
RA Rice S., Goodstadt L., Beatson S.A., Emes R.D., Winter E.E., Webber C.,
RA Brandt P., Nyakatura G., Adetobi M., Chiaromonte F., Elnitski L.,
RA Eswara P., Hardison R.C., Hou M., Kolbe D., Makova K., Miller W.,
RA Nekrutenko A., Riemer C., Schwartz S., Taylor J., Yang S., Zhang Y.,
RA Lindpaintner K., Andrews T.D., Caccamo M., Clamp M., Clarke L., Curwen V.,
RA Durbin R.M., Eyras E., Searle S.M., Cooper G.M., Batzoglou S., Brudno M.,
RA Sidow A., Stone E.A., Payseur B.A., Bourque G., Lopez-Otin C., Puente X.S.,
RA Chakrabarti K., Chatterji S., Dewey C., Pachter L., Bray N., Yap V.B.,
RA Caspi A., Tesler G., Pevzner P.A., Haussler D., Roskin K.M., Baertsch R.,
RA Clawson H., Furey T.S., Hinrichs A.S., Karolchik D., Kent W.J.,
RA Rosenbloom K.R., Trumbower H., Weirauch M., Cooper D.N., Stenson P.D.,
RA Ma B., Brent M., Arumugam M., Shteynberg D., Copley R.R., Taylor M.S.,
RA Riethman H., Mudunuri U., Peterson J., Guyer M., Felsenfeld A., Old S.,
RA Mockrin S., Collins F.S.;
RT "Genome sequence of the Brown Norway rat yields insights into mammalian
RT evolution.";
RL Nature 428:493-521(2004).
RN [2] {ECO:0000313|Ensembl:ENSRNOP00000014537.7}
RP IDENTIFICATION.
RC STRAIN=Brown Norway {ECO:0000313|Ensembl:ENSRNOP00000014537.7};
RG Ensembl;
RL Submitted (NOV-2023) to UniProtKB.
CC -!- FUNCTION: Mismatch-specific DNA N-glycosylase involved in DNA repair.
CC Has thymine glycosylase activity and is specific for G:T mismatches
CC within methylated and unmethylated CpG sites. Can also remove uracil or
CC 5-fluorouracil in G:U mismatches. Has no lyase activity. Was first
CC identified as methyl-CpG-binding protein.
CC {ECO:0000256|PIRNR:PIRNR038005}.
CC -!- SUBUNIT: Interacts with MLH1. {ECO:0000256|PIRNR:PIRNR038005}.
CC -!- SUBCELLULAR LOCATION: Nucleus {ECO:0000256|PIRNR:PIRNR038005}.
CC ---------------------------------------------------------------------------
CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms
CC Distributed under the Creative Commons Attribution (CC BY 4.0) License
CC ---------------------------------------------------------------------------
DR AlphaFoldDB; D4A9W8; -.
DR STRING; 10116.ENSRNOP00000014537; -.
DR PaxDb; 10116-ENSRNOP00000014537; -.
DR Ensembl; ENSRNOT00000014537.8; ENSRNOP00000014537.7; ENSRNOG00000010919.9.
DR AGR; RGD:1585874; -.
DR RGD; 1585874; Mbd4.
DR VEuPathDB; HostDB:ENSRNOG00000010919; -.
DR eggNOG; KOG4161; Eukaryota.
DR GeneTree; ENSGT00530000063687; -.
DR HOGENOM; CLU_034167_0_0_1; -.
DR InParanoid; D4A9W8; -.
DR OrthoDB; 1451962at2759; -.
DR TreeFam; TF329176; -.
DR Reactome; R-RNO-110329; Cleavage of the damaged pyrimidine.
DR Reactome; R-RNO-110357; Displacement of DNA glycosylase by APEX1.
DR Proteomes; UP000002494; Chromosome 4.
DR Bgee; ENSRNOG00000010919; Expressed in testis and 19 other cell types or tissues.
DR GO; GO:0000785; C:chromatin; ISO:RGD.
DR GO; GO:0005737; C:cytoplasm; ISO:RGD.
DR GO; GO:0005634; C:nucleus; ISO:RGD.
DR GO; GO:0003677; F:DNA binding; ISO:RGD.
DR GO; GO:0008263; F:pyrimidine-specific mismatch base pair DNA N-glycosylase activity; ISO:RGD.
DR GO; GO:0006974; P:DNA damage response; ISO:RGD.
DR GO; GO:0006281; P:DNA repair; IEA:UniProtKB-KW.
DR GO; GO:0008630; P:intrinsic apoptotic signaling pathway in response to DNA damage; ISO:RGD.
DR GO; GO:0007095; P:mitotic G2 DNA damage checkpoint signaling; ISO:RGD.
DR GO; GO:0032355; P:response to estradiol; IEP:RGD.
DR GO; GO:0009314; P:response to radiation; ISO:RGD.
DR CDD; cd01396; MeCP2_MBD; 1.
DR InterPro; IPR016177; DNA-bd_dom_sf.
DR InterPro; IPR011257; DNA_glycosylase.
DR InterPro; IPR017352; MBD4.
DR InterPro; IPR045138; MeCP2/MBD4.
DR InterPro; IPR001739; Methyl_CpG_DNA-bd.
DR PANTHER; PTHR15074:SF7; METHYL-CPG-BINDING DOMAIN PROTEIN 4; 1.
DR PANTHER; PTHR15074; METHYL-CPG-BINDING PROTEIN; 1.
DR Pfam; PF01429; MBD; 1.
DR PIRSF; PIRSF038005; Methyl_CpG_bd_MBD4; 1.
DR SMART; SM00391; MBD; 1.
DR SUPFAM; SSF54171; DNA-binding domain; 1.
DR SUPFAM; SSF48150; DNA-glycosylase; 1.
DR PROSITE; PS50982; MBD; 1.
PE 4: Predicted;
KW DNA damage {ECO:0000256|PIRNR:PIRNR038005};
KW DNA repair {ECO:0000256|PIRNR:PIRNR038005};
KW DNA-binding {ECO:0000256|PIRNR:PIRNR038005};
KW Hydrolase {ECO:0000256|PIRNR:PIRNR038005};
KW Nucleus {ECO:0000256|ARBA:ARBA00023242, ECO:0000256|PIRNR:PIRNR038005};
KW Phosphoprotein {ECO:0000256|ARBA:ARBA00022553};
KW Reference proteome {ECO:0000313|Proteomes:UP000002494}.
FT DOMAIN 51..123
FT /note="MBD"
FT /evidence="ECO:0000259|PROSITE:PS50982"
FT REGION 1..20
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 132..182
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 216..239
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 133..150
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 224..239
FT /note="Basic and acidic residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
SQ SEQUENCE 549 AA; 61550 MW; AD6D9AE7820623E8 CRC64;
SAERAGTQEA EAKEDVAVGL GGVGEDGKDL VISSECGSLL QEPAASTLPS CTTVAECHKP
VPCGWERVVK QRLSGKTAGR VDVYFISPQG SKFRSKRSLA NYLLKTGETC LKPEDFDFTV
LSKGGINPGY KHQSLSAPAS QQPNEADISK LNLRTRSKWK TDVLPLPGGN SESPDSNSLS
NSNSARLLLK EHKGIQDADS GKSRKPKIKV TVLKGIASQR TKQRCRKSPS DSTGRNRKRL
CTVQKADTDS ELVPQESRLH RTVCPADACA RATVSLVREA KGLGEEKSPS SDLRFTQVTS
SITNKLYSTE AAGEATREAT REQTFLESEE IRSKGEEEEA HLHIDILQSG SETPSCSQAK
KHLTSETFRE DSIPRTQVEK RKTSLYFSSK YNKEALSPPR RKAFKKWTPP RSPFNLVQET
LFHDPWKLLI STIFLNRTSG KMAIPVLWEF LEKYPSAEVA RTADWRDVSE LLKPLGLYDL
RAKTIIKFSD EYLTKPWRYP IELHGIGKYG NDSYRIFCVN EWKQVHPEDH KLNKYHDWLW
ENHEKLSLS
//
