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Protein

DNA (cytosine-5)-methyltransferase 3B

Gene

DNMT3B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Required for genome-wide de novo methylation and is essential for the establishment of DNA methylation patterns during development. DNA methylation is coordinated with methylation of histones. May preferentially methylates nucleosomal DNA within the nucleosome core region. May function as transcriptional co-repressor by associating with CBX4 and independently of DNA methylation. Seems to be involved in gene silencing (By similarity). In association with DNMT1 and via the recruitment of CTCFL/BORIS, involved in activation of BAG1 gene expression by modulating dimethylation of promoter histone H3 at H3K4 and H3K9. Isoforms 4 and 5 are probably not functional due to the deletion of two conserved methyltransferase motifs. Function as transcriptional corepressor by associating with ZHX1. Required for DUX4 silencing in somatic cells (PubMed:27153398).By similarity5 Publications

Catalytic activityi

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

Activity regulationi

Activated by binding to the regulatory factor DNMT3L.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei605S-adenosyl-L-methionineBy similarity1
Active sitei651PROSITE-ProRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri434 – 464GATA-type; atypicalPROSITE-ProRule annotationAdd BLAST31
Zinc fingeri475 – 531PHD-type; atypicalPROSITE-ProRule annotationAdd BLAST57

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionActivator, DNA-binding, Methyltransferase, Repressor, Transferase
LigandMetal-binding, S-adenosyl-L-methionine, Zinc

Enzyme and pathway databases

BRENDAi2.1.1.37 2681
ReactomeiR-HSA-212300 PRC2 methylates histones and DNA
R-HSA-427413 NoRC negatively regulates rRNA expression
R-HSA-4655427 SUMOylation of DNA methylation proteins
R-HSA-5334118 DNA methylation
SIGNORiQ9UBC3

Protein family/group databases

REBASEi4120 M.HsaDnmt3B

Names & Taxonomyi

Protein namesi
Recommended name:
DNA (cytosine-5)-methyltransferase 3B (EC:2.1.1.37)
Short name:
Dnmt3b
Alternative name(s):
DNA methyltransferase HsaIIIB
Short name:
DNA MTase HsaIIIB
Short name:
M.HsaIIIB
Gene namesi
Name:DNMT3B
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 20

Organism-specific databases

EuPathDBiHostDB:ENSG00000088305.18
HGNCiHGNC:2979 DNMT3B
MIMi602900 gene
neXtProtiNX_Q9UBC3

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

Pathology & Biotechi

Involvement in diseasei

Immunodeficiency-centromeric instability-facial anomalies syndrome 1 (ICF1)7 Publications
The disease is caused by mutations affecting the gene represented in this entry.
Disease descriptionA rare disorder characterized by a variable immunodeficiency resulting in recurrent infections, facial anomalies, and branching of chromosomes 1, 9, and 16. Other variable symptoms include growth retardation, failure to thrive, and psychomotor retardation. Laboratory studies show limited hypomethylation of DNA in a small fraction of the genome in some, but not all, patients.
See also OMIM:242860
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_022579270S → P in ICF1. 1 PublicationCorresponds to variant dbSNP:rs121908947EnsemblClinVar.1
Natural variantiVAR_077528585A → T in ICF1. 1 PublicationCorresponds to variant dbSNP:rs750849178Ensembl.1
Natural variantiVAR_011506585A → V in ICF1. 2 Publications1
Natural variantiVAR_011499603A → T in ICF1. 4 PublicationsCorresponds to variant dbSNP:rs121908943EnsemblClinVar.1
Natural variantiVAR_011507606V → A in ICF1. 2 PublicationsCorresponds to variant dbSNP:rs867732105Ensembl.1
Natural variantiVAR_011500663G → S in ICF1. 2 PublicationsCorresponds to variant dbSNP:rs121908942EnsemblClinVar.1
Natural variantiVAR_022580664L → P in ICF1. 1 Publication1
Natural variantiVAR_011508699V → G in ICF1. 2 Publications1
Natural variantiVAR_011501726V → G in ICF1. 4 PublicationsCorresponds to variant dbSNP:rs121908941Ensembl.1
Natural variantiVAR_011509766A → P in ICF1. 2 PublicationsCorresponds to variant dbSNP:rs1191203668Ensembl.1
Natural variantiVAR_011502806E → ESTP in ICF1. 1
Natural variantiVAR_011510814H → R in ICF1. 2 PublicationsCorresponds to variant dbSNP:rs1219696128Ensembl.1
Natural variantiVAR_011503817D → G in ICF1. 2 PublicationsCorresponds to variant dbSNP:rs121908939EnsemblClinVar.1
Natural variantiVAR_011504818V → M in ICF1. 3 PublicationsCorresponds to variant dbSNP:rs121908940EnsemblClinVar.1
Natural variantiVAR_077530836V → M in ICF1; unknown pathological significance. 1 PublicationCorresponds to variant dbSNP:rs866792483Ensembl.1
Natural variantiVAR_022581840R → Q in ICF1. 1 PublicationCorresponds to variant dbSNP:rs121908946EnsemblClinVar.1
Facioscapulohumeral muscular dystrophy 2 (FSHD2)1 Publication
The gene represented in this entry may act as a disease modifier. DNMT3B mutations lead to DUX4 expression in somatic tissues, including muscle cells, when an haplotype on chromosome 4 is permissive for DUX4 expression. Ectopic expression of DUX4 in skeletal muscle activates the expression of stem cell and germline genes, and, when overexpressed in somatic cells, DUX4 can ultimately lead to cell death.
Disease descriptionA degenerative muscle disease characterized by slowly progressive weakness of the muscles of the face, upper-arm, and shoulder girdle. The onset of symptoms usually occurs in the first or second decade of life. Affected individuals usually present with impairment of upper extremity elevation. This tends to be followed by facial weakness, primarily involving the orbicularis oris and orbicularis oculi muscles.
See also OMIM:158901
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_077527527C → R in FSHD2. 1 Publication1
Natural variantiVAR_077529691P → L in FSHD2. 1 PublicationCorresponds to variant dbSNP:rs889145646Ensembl.1

Keywords - Diseasei

Disease mutation

Organism-specific databases

DisGeNETi1789
MalaCardsiDNMT3B
MIMi158901 phenotype
242860 phenotype
OpenTargetsiENSG00000088305
Orphaneti2268 ICF syndrome
PharmGKBiPA27446

Chemistry databases

ChEMBLiCHEMBL6095

Polymorphism and mutation databases

BioMutaiDNMT3B
DMDMi17375667

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000880451 – 853DNA (cytosine-5)-methyltransferase 3BAdd BLAST853

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei82PhosphoserineCombined sources1
Cross-linki89Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei96PhosphothreonineCombined sources1
Modified residuei100PhosphoserineCombined sources1
Modified residuei110PhosphoserineCombined sources1
Modified residuei136PhosphoserineCombined sources1
Modified residuei195PhosphoserineCombined sources1
Modified residuei202PhosphoserineCombined sources1
Modified residuei209PhosphoserineCombined sources1
Modified residuei410CitrullineBy similarity1
Cross-linki617Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources

Post-translational modificationi

Sumoylated.1 Publication
Citrullinated by PADI4.By similarity

Keywords - PTMi

Citrullination, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ9UBC3
MaxQBiQ9UBC3
PaxDbiQ9UBC3
PeptideAtlasiQ9UBC3
PRIDEiQ9UBC3
ProteomicsDBi83935
83936 [Q9UBC3-2]
83937 [Q9UBC3-3]
83938 [Q9UBC3-4]
83939 [Q9UBC3-5]
83940 [Q9UBC3-6]

PTM databases

iPTMnetiQ9UBC3
PhosphoSitePlusiQ9UBC3

Expressioni

Tissue specificityi

Ubiquitous; highly expressed in fetal liver, heart, kidney, placenta, and at lower levels in spleen, colon, brain, liver, small intestine, lung, peripheral blood mononuclear cells, and skeletal muscle. Isoform 1 is expressed in all tissues except brain, skeletal muscle and PBMC, 3 is ubiquitous, 4 is expressed in all tissues except brain, skeletal muscle, lung and prostate and 5 is detectable only in testis and at very low level in brain and prostate.

Gene expression databases

BgeeiENSG00000088305 Expressed in 137 organ(s), highest expression level in secondary oocyte
CleanExiHS_DNMT3B
GenevisibleiQ9UBC3 HS

Organism-specific databases

HPAiCAB069896
HPA001595

Interactioni

Subunit structurei

Interacts with BAZ2A/TIP5, SUV39H1 and CBX4. Interacts with UHRF1 (By similarity). Interacts with DNMT1 and DNMT3A, SETDB1, UBL1, UBE2I9 and ZHX1. Interacts with the PRC2/EED-EZH2 complex.By similarity5 Publications

Binary interactionsi

GO - Molecular functioni

Protein-protein interaction databases

BioGridi108126, 73 interactors
CORUMiQ9UBC3
DIPiDIP-30000N
IntActiQ9UBC3, 29 interactors
MINTiQ9UBC3
STRINGi9606.ENSP00000328547

Chemistry databases

BindingDBiQ9UBC3

Structurei

Secondary structure

1853
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

ProteinModelPortaliQ9UBC3
SMRiQ9UBC3
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9UBC3

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini225 – 283PWWPPROSITE-ProRule annotationAdd BLAST59
Domaini423 – 555ADDPROSITE-ProRule annotationAdd BLAST133
Domaini575 – 853SAM-dependent MTase C5-typePROSITE-ProRule annotationAdd BLAST279

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni1 – 298Interaction with DNMT1 and DNMT3A1 PublicationAdd BLAST298
Regioni435 – 527Interaction with the PRC2/EED-EZH2 complexBy similarityAdd BLAST93
Regioni582 – 586S-adenosyl-L-methionine bindingBy similarity5
Regioni627 – 629S-adenosyl-L-methionine bindingBy similarity3
Regioni832 – 834S-adenosyl-L-methionine bindingBy similarity3

Domaini

The PWWP domain is essential for targeting to pericentric heterochromatin.

Sequence similaritiesi

Belongs to the class I-like SAM-binding methyltransferase superfamily. C5-methyltransferase family.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri434 – 464GATA-type; atypicalPROSITE-ProRule annotationAdd BLAST31
Zinc fingeri475 – 531PHD-type; atypicalPROSITE-ProRule annotationAdd BLAST57

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiENOG410IGHW Eukaryota
ENOG410XQ4Y LUCA
GeneTreeiENSGT00390000008341
HOGENOMiHOG000230875
HOVERGENiHBG051381
InParanoidiQ9UBC3
KOiK17399
OMAiMKGDTRQ
OrthoDBiEOG091G01TP
PhylomeDBiQ9UBC3
TreeFamiTF329039

Family and domain databases

CDDicd11728 ADDz_Dnmt3b, 1 hit
InterProiView protein in InterPro
IPR025766 ADD
IPR018117 C5_DNA_meth_AS
IPR001525 C5_MeTfrase
IPR030488 DNMT3B_ADD
IPR000313 PWWP_dom
IPR029063 SAM-dependent_MTases
IPR011011 Znf_FYVE_PHD
PfamiView protein in Pfam
PF00145 DNA_methylase, 1 hit
PF00855 PWWP, 1 hit
SMARTiView protein in SMART
SM00293 PWWP, 1 hit
SUPFAMiSSF53335 SSF53335, 1 hit
SSF57903 SSF57903, 1 hit
PROSITEiView protein in PROSITE
PS51533 ADD, 1 hit
PS00094 C5_MTASE_1, 1 hit
PS50812 PWWP, 1 hit
PS51679 SAM_MT_C5, 1 hit

Sequences (8)i

Sequence statusi: Complete.

This entry describes 8 isoformsi produced by alternative splicing. AlignAdd to basket
Isoform 1 (identifier: Q9UBC3-1) [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
MKGDTRHLNG EEDAGGREDS ILVNGACSDQ SSDSPPILEA IRTPEIRGRR
60 70 80 90 100
SSSRLSKREV SSLLSYTQDL TGDGDGEDGD GSDTPVMPKL FRETRTRSES
110 120 130 140 150
PAVRTRNNNS VSSRERHRPS PRSTRGRQGR NHVDESPVEF PATRSLRRRA
160 170 180 190 200
TASAGTPWPS PPSSYLTIDL TDDTEDTHGT PQSSSTPYAR LAQDSQQGGM
210 220 230 240 250
ESPQVEADSG DGDSSEYQDG KEFGIGDLVW GKIKGFSWWP AMVVSWKATS
260 270 280 290 300
KRQAMSGMRW VQWFGDGKFS EVSADKLVAL GLFSQHFNLA TFNKLVSYRK
310 320 330 340 350
AMYHALEKAR VRAGKTFPSS PGDSLEDQLK PMLEWAHGGF KPTGIEGLKP
360 370 380 390 400
NNTQPVVNKS KVRRAGSRKL ESRKYENKTR RRTADDSATS DYCPAPKRLK
410 420 430 440 450
TNCYNNGKDR GDEDQSREQM ASDVANNKSS LEDGCLSCGR KNPVSFHPLF
460 470 480 490 500
EGGLCQTCRD RFLELFYMYD DDGYQSYCTV CCEGRELLLC SNTSCCRCFC
510 520 530 540 550
VECLEVLVGT GTAAEAKLQE PWSCYMCLPQ RCHGVLRRRK DWNVRLQAFF
560 570 580 590 600
TSDTGLEYEA PKLYPAIPAA RRRPIRVLSL FDGIATGYLV LKELGIKVGK
610 620 630 640 650
YVASEVCEES IAVGTVKHEG NIKYVNDVRN ITKKNIEEWG PFDLVIGGSP
660 670 680 690 700
CNDLSNVNPA RKGLYEGTGR LFFEFYHLLN YSRPKEGDDR PFFWMFENVV
710 720 730 740 750
AMKVGDKRDI SRFLECNPVM IDAIKVSAAH RARYFWGNLP GMNRPVIASK
760 770 780 790 800
NDKLELQDCL EYNRIAKLKK VQTITTKSNS IKQGKNQLFP VVMNGKEDVL
810 820 830 840 850
WCTELERIFG FPVHYTDVSN MGRGARQKLL GRSWSVPVIR HLFAPLKDYF

ACE
Length:853
Mass (Da):95,751
Last modified:May 1, 2000 - v1
Checksum:iF20A67CF78951532
GO
Isoform 2 (identifier: Q9UBC3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     356-375: Missing.

Show »
Length:833
Mass (Da):93,407
Checksum:iDAD71DB275947261
GO
Isoform 3 (identifier: Q9UBC3-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     356-375: Missing.
     745-807: Missing.

Show »
Length:770
Mass (Da):86,177
Checksum:iE7777E3879B1D93B
GO
Isoform 4 (identifier: Q9UBC3-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     356-375: Missing.
     744-744: R → S
     745-853: Missing.

Show »
Length:724
Mass (Da):80,845
Checksum:i21173ED0988996FC
GO
Isoform 5 (identifier: Q9UBC3-5) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     356-375: Missing.
     768-853: LKKVQTITTK...APLKDYFACE → DLWLSCALHR...LRPSEGLLCM

Show »
Length:792
Mass (Da):88,572
Checksum:iC6721C7241B9283A
GO
Isoform 6 (identifier: Q9UBC3-6) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MEPSPEPPSLESM
     356-375: Missing.

Show »
Length:845
Mass (Da):94,689
Checksum:iCFA82BB96B59EFBF
GO
Isoform 7 (identifier: Q9UBC3-7) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     69-144: Missing.
     356-375: Missing.
     744-806: Missing.

Note: No experimental confirmation available.
Show »
Length:694
Mass (Da):77,719
Checksum:i6C59147487ABA6DC
GO
Isoform 8 (identifier: Q9UBC3-8) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     103-144: Missing.
     356-375: Missing.
     744-806: Missing.

Note: No experimental confirmation available.
Show »
Length:728
Mass (Da):81,311
Checksum:iE4465A68EC2334A0
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti575I → T in BAG61690 (PubMed:14702039).Curated1
Sequence conflicti583G → D in BAG61753 (PubMed:14702039).Curated1
Sequence conflicti655S → P in BAG61690 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_03388554R → P. Corresponds to variant dbSNP:rs17123590Ensembl.1
Natural variantiVAR_022579270S → P in ICF1. 1 PublicationCorresponds to variant dbSNP:rs121908947EnsemblClinVar.1
Natural variantiVAR_077527527C → R in FSHD2. 1 Publication1
Natural variantiVAR_077528585A → T in ICF1. 1 PublicationCorresponds to variant dbSNP:rs750849178Ensembl.1
Natural variantiVAR_011506585A → V in ICF1. 2 Publications1
Natural variantiVAR_011499603A → T in ICF1. 4 PublicationsCorresponds to variant dbSNP:rs121908943EnsemblClinVar.1
Natural variantiVAR_011507606V → A in ICF1. 2 PublicationsCorresponds to variant dbSNP:rs867732105Ensembl.1
Natural variantiVAR_011500663G → S in ICF1. 2 PublicationsCorresponds to variant dbSNP:rs121908942EnsemblClinVar.1
Natural variantiVAR_022580664L → P in ICF1. 1 Publication1
Natural variantiVAR_077529691P → L in FSHD2. 1 PublicationCorresponds to variant dbSNP:rs889145646Ensembl.1
Natural variantiVAR_011508699V → G in ICF1. 2 Publications1
Natural variantiVAR_011501726V → G in ICF1. 4 PublicationsCorresponds to variant dbSNP:rs121908941Ensembl.1
Natural variantiVAR_011509766A → P in ICF1. 2 PublicationsCorresponds to variant dbSNP:rs1191203668Ensembl.1
Natural variantiVAR_011502806E → ESTP in ICF1. 1
Natural variantiVAR_011510814H → R in ICF1. 2 PublicationsCorresponds to variant dbSNP:rs1219696128Ensembl.1
Natural variantiVAR_011503817D → G in ICF1. 2 PublicationsCorresponds to variant dbSNP:rs121908939EnsemblClinVar.1
Natural variantiVAR_011504818V → M in ICF1. 3 PublicationsCorresponds to variant dbSNP:rs121908940EnsemblClinVar.1
Natural variantiVAR_077530836V → M in ICF1; unknown pathological significance. 1 PublicationCorresponds to variant dbSNP:rs866792483Ensembl.1
Natural variantiVAR_022581840R → Q in ICF1. 1 PublicationCorresponds to variant dbSNP:rs121908946EnsemblClinVar.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0056361M → MEPSPEPPSLESM in isoform 6. 1 Publication1
Alternative sequenceiVSP_04587469 – 144Missing in isoform 7. 1 PublicationAdd BLAST76
Alternative sequenceiVSP_045875103 – 144Missing in isoform 8. 1 PublicationAdd BLAST42
Alternative sequenceiVSP_005637356 – 375Missing in isoform 2, isoform 3, isoform 4, isoform 5, isoform 6, isoform 7 and isoform 8. 4 PublicationsAdd BLAST20
Alternative sequenceiVSP_045876744 – 806Missing in isoform 7 and isoform 8. 1 PublicationAdd BLAST63
Alternative sequenceiVSP_005639744R → S in isoform 4. 1 Publication1
Alternative sequenceiVSP_005640745 – 853Missing in isoform 4. 1 PublicationAdd BLAST109
Alternative sequenceiVSP_005638745 – 807Missing in isoform 3. 1 PublicationAdd BLAST63
Alternative sequenceiVSP_005641768 – 853LKKVQ…YFACE → DLWLSCALHRRVQHGPWCPP EAAGKVLERACHPTPLRPSE GLLCM in isoform 5. 1 PublicationAdd BLAST86

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF156487 mRNA Translation: AAD53062.1
AF156488 mRNA Translation: AAD53063.1
AF176228 mRNA Translation: AAF04015.1
AF331857 mRNA Translation: AAL57040.1
AK299821 mRNA Translation: BAG61690.1
AK299915 mRNA Translation: BAG61753.1
AL035071 Genomic DNA No translation available.
CH471077 Genomic DNA Translation: EAW76351.1
CH471077 Genomic DNA Translation: EAW76352.1
CH471077 Genomic DNA Translation: EAW76353.1
CH471077 Genomic DNA Translation: EAW76354.1
CH471077 Genomic DNA Translation: EAW76356.1
AF129267 mRNA Translation: AAD31432.1
AF129268 mRNA Translation: AAD31433.1
AF129269 mRNA Translation: AAD31434.1
CCDSiCCDS13204.1 [Q9UBC3-6]
CCDS13205.1 [Q9UBC3-1]
CCDS13206.1 [Q9UBC3-2]
CCDS13207.1 [Q9UBC3-3]
CCDS56183.1 [Q9UBC3-8]
CCDS56184.1 [Q9UBC3-7]
RefSeqiNP_001193984.1, NM_001207055.1 [Q9UBC3-8]
NP_001193985.1, NM_001207056.1 [Q9UBC3-7]
NP_008823.1, NM_006892.3 [Q9UBC3-1]
NP_787044.1, NM_175848.1 [Q9UBC3-2]
NP_787045.1, NM_175849.1 [Q9UBC3-3]
NP_787046.1, NM_175850.2 [Q9UBC3-6]
UniGeneiHs.643024
Hs.713611

Genome annotation databases

EnsembliENST00000201963; ENSP00000201963; ENSG00000088305 [Q9UBC3-6]
ENST00000328111; ENSP00000328547; ENSG00000088305 [Q9UBC3-1]
ENST00000348286; ENSP00000337764; ENSG00000088305 [Q9UBC3-3]
ENST00000353855; ENSP00000313397; ENSG00000088305 [Q9UBC3-2]
ENST00000443239; ENSP00000403169; ENSG00000088305 [Q9UBC3-8]
ENST00000456297; ENSP00000412305; ENSG00000088305 [Q9UBC3-7]
GeneIDi1789
KEGGihsa:1789
UCSCiuc002wyc.3 human [Q9UBC3-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Cross-referencesi

Web resourcesi

DNMT3Bbase

DNMT3B mutation db

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF156487 mRNA Translation: AAD53062.1
AF156488 mRNA Translation: AAD53063.1
AF176228 mRNA Translation: AAF04015.1
AF331857 mRNA Translation: AAL57040.1
AK299821 mRNA Translation: BAG61690.1
AK299915 mRNA Translation: BAG61753.1
AL035071 Genomic DNA No translation available.
CH471077 Genomic DNA Translation: EAW76351.1
CH471077 Genomic DNA Translation: EAW76352.1
CH471077 Genomic DNA Translation: EAW76353.1
CH471077 Genomic DNA Translation: EAW76354.1
CH471077 Genomic DNA Translation: EAW76356.1
AF129267 mRNA Translation: AAD31432.1
AF129268 mRNA Translation: AAD31433.1
AF129269 mRNA Translation: AAD31434.1
CCDSiCCDS13204.1 [Q9UBC3-6]
CCDS13205.1 [Q9UBC3-1]
CCDS13206.1 [Q9UBC3-2]
CCDS13207.1 [Q9UBC3-3]
CCDS56183.1 [Q9UBC3-8]
CCDS56184.1 [Q9UBC3-7]
RefSeqiNP_001193984.1, NM_001207055.1 [Q9UBC3-8]
NP_001193985.1, NM_001207056.1 [Q9UBC3-7]
NP_008823.1, NM_006892.3 [Q9UBC3-1]
NP_787044.1, NM_175848.1 [Q9UBC3-2]
NP_787045.1, NM_175849.1 [Q9UBC3-3]
NP_787046.1, NM_175850.2 [Q9UBC3-6]
UniGeneiHs.643024
Hs.713611

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3FLGX-ray1.80A206-355[»]
3QKJX-ray2.04A/B/C/D206-355[»]
5CIUX-ray2.24A/B206-355[»]
5NR3X-ray2.30A/B206-355[»]
5NRRX-ray1.70A/B206-355[»]
5NRSX-ray2.30A/B206-355[»]
5NRVX-ray2.08A/D206-355[»]
5NV0X-ray2.40A/B206-355[»]
5NV2X-ray2.03A/B206-355[»]
5NV7X-ray2.57A/B206-355[»]
5NVOX-ray2.40A/B206-355[»]
ProteinModelPortaliQ9UBC3
SMRiQ9UBC3
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi108126, 73 interactors
CORUMiQ9UBC3
DIPiDIP-30000N
IntActiQ9UBC3, 29 interactors
MINTiQ9UBC3
STRINGi9606.ENSP00000328547

Chemistry databases

BindingDBiQ9UBC3
ChEMBLiCHEMBL6095

Protein family/group databases

REBASEi4120 M.HsaDnmt3B

PTM databases

iPTMnetiQ9UBC3
PhosphoSitePlusiQ9UBC3

Polymorphism and mutation databases

BioMutaiDNMT3B
DMDMi17375667

Proteomic databases

EPDiQ9UBC3
MaxQBiQ9UBC3
PaxDbiQ9UBC3
PeptideAtlasiQ9UBC3
PRIDEiQ9UBC3
ProteomicsDBi83935
83936 [Q9UBC3-2]
83937 [Q9UBC3-3]
83938 [Q9UBC3-4]
83939 [Q9UBC3-5]
83940 [Q9UBC3-6]

Protocols and materials databases

DNASUi1789
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000201963; ENSP00000201963; ENSG00000088305 [Q9UBC3-6]
ENST00000328111; ENSP00000328547; ENSG00000088305 [Q9UBC3-1]
ENST00000348286; ENSP00000337764; ENSG00000088305 [Q9UBC3-3]
ENST00000353855; ENSP00000313397; ENSG00000088305 [Q9UBC3-2]
ENST00000443239; ENSP00000403169; ENSG00000088305 [Q9UBC3-8]
ENST00000456297; ENSP00000412305; ENSG00000088305 [Q9UBC3-7]
GeneIDi1789
KEGGihsa:1789
UCSCiuc002wyc.3 human [Q9UBC3-1]

Organism-specific databases

CTDi1789
DisGeNETi1789
EuPathDBiHostDB:ENSG00000088305.18
GeneCardsiDNMT3B
HGNCiHGNC:2979 DNMT3B
HPAiCAB069896
HPA001595
MalaCardsiDNMT3B
MIMi158901 phenotype
242860 phenotype
602900 gene
neXtProtiNX_Q9UBC3
OpenTargetsiENSG00000088305
Orphaneti2268 ICF syndrome
PharmGKBiPA27446
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IGHW Eukaryota
ENOG410XQ4Y LUCA
GeneTreeiENSGT00390000008341
HOGENOMiHOG000230875
HOVERGENiHBG051381
InParanoidiQ9UBC3
KOiK17399
OMAiMKGDTRQ
OrthoDBiEOG091G01TP
PhylomeDBiQ9UBC3
TreeFamiTF329039

Enzyme and pathway databases

BRENDAi2.1.1.37 2681
ReactomeiR-HSA-212300 PRC2 methylates histones and DNA
R-HSA-427413 NoRC negatively regulates rRNA expression
R-HSA-4655427 SUMOylation of DNA methylation proteins
R-HSA-5334118 DNA methylation
SIGNORiQ9UBC3

Miscellaneous databases

ChiTaRSiDNMT3B human
EvolutionaryTraceiQ9UBC3
GeneWikiiDNMT3B
GenomeRNAii1789
PROiPR:Q9UBC3
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000088305 Expressed in 137 organ(s), highest expression level in secondary oocyte
CleanExiHS_DNMT3B
GenevisibleiQ9UBC3 HS

Family and domain databases

CDDicd11728 ADDz_Dnmt3b, 1 hit
InterProiView protein in InterPro
IPR025766 ADD
IPR018117 C5_DNA_meth_AS
IPR001525 C5_MeTfrase
IPR030488 DNMT3B_ADD
IPR000313 PWWP_dom
IPR029063 SAM-dependent_MTases
IPR011011 Znf_FYVE_PHD
PfamiView protein in Pfam
PF00145 DNA_methylase, 1 hit
PF00855 PWWP, 1 hit
SMARTiView protein in SMART
SM00293 PWWP, 1 hit
SUPFAMiSSF53335 SSF53335, 1 hit
SSF57903 SSF57903, 1 hit
PROSITEiView protein in PROSITE
PS51533 ADD, 1 hit
PS00094 C5_MTASE_1, 1 hit
PS50812 PWWP, 1 hit
PS51679 SAM_MT_C5, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiDNM3B_HUMAN
AccessioniPrimary (citable) accession number: Q9UBC3
Secondary accession number(s): A2A2E2
, B4DSM8, B4DSU1, E1P5M6, E1P5M7, E7EN63, E9PBF2, Q9UBD4, Q9UJQ5, Q9UKA6, Q9UNE5, Q9Y5R9, Q9Y5S0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 26, 2001
Last sequence update: May 1, 2000
Last modified: November 7, 2018
This is version 189 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. Human chromosome 20
    Human chromosome 20: entries, gene names and cross-references to MIM
  6. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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Main funding by: National Institutes of Health

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