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Protein

Methyl-CpG-binding domain protein 4

Gene

Mbd4

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Mismatch-specific DNA N-glycosylase involved in DNA repair. Has thymine glycosylase activity and is specific for G:T mismatches within methylated and unmethylated CpG sites. Can also remove uracil or 5-fluorouracil in G:U mismatches. Has no lyase activity. Was first identified as methyl-CpG-binding protein.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei534By similarity1

GO - Molecular functioni

GO - Biological processi

  • cellular response to DNA damage stimulus Source: MGI
  • DNA methylation Source: MGI
  • DNA repair Source: GO_Central
  • intrinsic apoptotic signaling pathway in response to DNA damage Source: MGI
  • mitotic G2 DNA damage checkpoint Source: MGI
  • response to radiation Source: MGI

Keywordsi

Molecular functionDNA-binding, Hydrolase
Biological processDNA damage, DNA repair

Names & Taxonomyi

Protein namesi
Recommended name:
Methyl-CpG-binding domain protein 4 (EC:3.2.2.-)
Alternative name(s):
Methyl-CpG-binding protein MBD4
Mismatch-specific DNA N-glycosylase
Gene namesi
Name:Mbd4
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Unplaced

Organism-specific databases

MGIiMGI:1333850 Mbd4

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000962651 – 554Methyl-CpG-binding domain protein 4Add BLAST554

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei296PhosphoserineBy similarity1
Modified residuei402PhosphoserineBy similarity1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ9Z2D7
PaxDbiQ9Z2D7
PeptideAtlasiQ9Z2D7
PRIDEiQ9Z2D7

PTM databases

iPTMnetiQ9Z2D7
PhosphoSitePlusiQ9Z2D7

Expressioni

Gene expression databases

CleanExiMM_MBD4

Interactioni

Subunit structurei

Interacts with MLH1.By similarity

Protein-protein interaction databases

BioGridi2013332 interactors.
STRINGi10090.ENSMUSP00000032469

Structurei

Secondary structure

1554
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi78 – 83Combined sources6
Turni88 – 91Combined sources4
Beta strandi93 – 98Combined sources6
Beta strandi104 – 107Combined sources4
Helixi108 – 118Combined sources11
Helixi125 – 127Combined sources3
Helixi423 – 426Combined sources4
Helixi430 – 440Combined sources11
Helixi445 – 458Combined sources14
Helixi462 – 467Combined sources6
Helixi470 – 476Combined sources7
Helixi478 – 480Combined sources3
Helixi483 – 499Combined sources17
Helixi505 – 507Combined sources3
Helixi513 – 522Combined sources10
Helixi527 – 529Combined sources3
Helixi535 – 551Combined sources17

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1NGNX-ray2.10A400-554[»]
3VXVX-ray2.00A69-136[»]
3VXXX-ray2.20A69-136[»]
3VYBX-ray2.40A69-136[»]
3VYQX-ray2.52A/D63-136[»]
4EVVX-ray2.39A411-554[»]
4EW0X-ray2.39A411-554[»]
4EW4X-ray2.79A411-554[»]
ProteinModelPortaliQ9Z2D7
SMRiQ9Z2D7
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9Z2D7

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini63 – 135MBDPROSITE-ProRule annotationAdd BLAST73

Phylogenomic databases

eggNOGiKOG4161 Eukaryota
ENOG4111HPQ LUCA
HOGENOMiHOG000113489
HOVERGENiHBG052418
InParanoidiQ9Z2D7
KOiK10801
PhylomeDBiQ9Z2D7
TreeFamiTF329176

Family and domain databases

InterProiView protein in InterPro
IPR016177 DNA-bd_dom_sf
IPR011257 DNA_glycosylase
IPR017352 MBD4
IPR001739 Methyl_CpG_DNA-bd
PANTHERiPTHR15074:SF6 PTHR15074:SF6, 1 hit
PfamiView protein in Pfam
PF01429 MBD, 1 hit
PIRSFiPIRSF038005 Methyl_CpG_bd_MBD4, 1 hit
SMARTiView protein in SMART
SM00391 MBD, 1 hit
SUPFAMiSSF48150 SSF48150, 1 hit
SSF54171 SSF54171, 1 hit
PROSITEiView protein in PROSITE
PS50982 MBD, 1 hit

Sequencei

Sequence statusi: Complete.

Q9Z2D7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MESPNLGDNR VRGESLVPDP PWDRCKEDIA VGLGGVGEDG KDLVISSERS
60 70 80 90 100
SLLQEPTAST LSSTTATEGH KPVPCGWERV VKQRLSGKTA GKFDVYFISP
110 120 130 140 150
QGLKFRSKRS LANYLLKNGE TFLKPEDFNF TVLPKGSINP GYKHQSLAAL
160 170 180 190 200
TSLQPNETDV SKQNLKTRSK WKTDVLPLPS GTSESPESSG LSNSNSACLL
210 220 230 240 250
LREHRDIQDV DSEKRRKSKR KVTVLKGTAS QKTKQKCRKS LLESTQRNRK
260 270 280 290 300
RASVVQKVGA DRELVPQESQ LNRTLCPADA CARETVGLAG EEKSPSPGLD
310 320 330 340 350
LCFIQVTSGT TNKFHSTEAA GEANREQTFL ESEEIRSKGD RKGEAHLHTG
360 370 380 390 400
VLQDGSEMPS CSQAKKHFTS ETFQEDSIPR TQVEKRKTSL YFSSKYNKEA
410 420 430 440 450
LSPPRRKSFK KWTPPRSPFN LVQEILFHDP WKLLIATIFL NRTSGKMAIP
460 470 480 490 500
VLWEFLEKYP SAEVARAADW RDVSELLKPL GLYDLRAKTI IKFSDEYLTK
510 520 530 540 550
QWRYPIELHG IGKYGNDSYR IFCVNEWKQV HPEDHKLNKY HDWLWENHEK

LSLS
Length:554
Mass (Da):62,578
Last modified:May 1, 1999 - v1
Checksum:i792D37CB180291F5
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti129N → D in AAH24812 (PubMed:15489334).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF072249 mRNA Translation: AAC68878.1
AF120996 Genomic DNA Translation: AAD56595.1
BC024812 mRNA Translation: AAH24812.1
CCDSiCCDS39603.1
RefSeqiNP_034904.2, NM_010774.2
UniGeneiMm.259308

Genome annotation databases

GeneIDi17193
KEGGimmu:17193
UCSCiuc009dje.2 mouse

Similar proteinsi

Entry informationi

Entry nameiMBD4_MOUSE
AccessioniPrimary (citable) accession number: Q9Z2D7
Secondary accession number(s): Q792D2, Q8R3R3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 19, 2004
Last sequence update: May 1, 1999
Last modified: November 22, 2017
This is version 134 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome