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Protein

DNA (cytosine-5)-methyltransferase 3B

Gene

DNMT3B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-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.By similarity4 Publications

Catalytic activityi

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

Enzyme 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

Complete GO annotation...

Keywords - Molecular functioni

Activator, Methyltransferase, Repressor, Transferase

Keywords - Ligandi

DNA-binding, Metal-binding, S-adenosyl-L-methionine, Zinc

Enzyme and pathway databases

BioCyciZFISH:HS01597-MONOMER.
BRENDAi2.1.1.37. 2681.
ReactomeiR-HSA-212300. PRC2 methylates histones and DNA.
R-HSA-427413. NoRC negatively regulates rRNA expression.
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

HGNCiHGNC:2979. DNMT3B.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: Ensembl
  • intracellular membrane-bounded organelle Source: HPA
  • nucleoplasm Source: HPA
  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Involvement in diseasei

Immunodeficiency-centromeric instability-facial anomalies syndrome 1 (ICF1)5 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 rs121908947dbSNPEnsembl.1
Natural variantiVAR_011506585A → V in ICF1. 2 Publications1
Natural variantiVAR_011499603A → T in ICF1. 4 PublicationsCorresponds to variant rs121908943dbSNPEnsembl.1
Natural variantiVAR_011507606V → A in ICF1. 2 PublicationsCorresponds to variant rs146981624dbSNPEnsembl.1
Natural variantiVAR_011500663G → S in ICF1. 2 PublicationsCorresponds to variant rs121908942dbSNPEnsembl.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 rs121908941dbSNPEnsembl.1
Natural variantiVAR_011509766A → P in ICF1. 2 Publications1
Natural variantiVAR_011502806E → ESTP in ICF1. 1
Natural variantiVAR_011510814H → R in ICF1. 2 Publications1
Natural variantiVAR_011503817D → G in ICF1. 2 PublicationsCorresponds to variant rs121908939dbSNPEnsembl.1
Natural variantiVAR_011504818V → M in ICF1. 3 PublicationsCorresponds to variant rs121908940dbSNPEnsembl.1
Natural variantiVAR_022581840R → Q in ICF1. 1 PublicationCorresponds to variant rs121908946dbSNPEnsembl.1

Keywords - Diseasei

Disease mutation

Organism-specific databases

DisGeNETi1789.
MalaCardsiDNMT3B.
MIMi242860. 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
Modified residuei96PhosphothreonineCombined sources1
Modified residuei100PhosphoserineCombined sources1
Modified residuei110PhosphoserineCombined sources1
Modified residuei136PhosphoserineCombined sources1
Modified residuei195PhosphoserineCombined sources1
Modified residuei202PhosphoserineCombined sources1
Modified residuei209PhosphoserineCombined sources1
Modified residuei410CitrullineBy similarity1

Post-translational modificationi

Sumoylated.1 Publication
Citrullinated by PADI4.By similarity

Keywords - PTMi

Citrullination, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ9UBC3.
MaxQBiQ9UBC3.
PaxDbiQ9UBC3.
PeptideAtlasiQ9UBC3.
PRIDEiQ9UBC3.

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.
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

WithEntry#Exp.IntActNotes
EEDO755304EBI-80125,EBI-923794
EZH2Q159108EBI-80125,EBI-530054
SUMO1P631654EBI-80125,EBI-80140
UBE2IP632793EBI-80125,EBI-80168
UHRF1Q96T887EBI-80125,EBI-1548946
ZHX1Q9UKY16EBI-6083193,EBI-347767

Protein-protein interaction databases

BioGridi108126. 70 interactors.
DIPiDIP-30000N.
IntActiQ9UBC3. 26 interactors.
MINTiMINT-2820816.
STRINGi9606.ENSP00000328547.

Chemistry databases

BindingDBiQ9UBC3.

Structurei

Secondary structure

1853
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi219 – 222Combined sources4
Beta strandi228 – 231Combined sources4
Beta strandi239 – 244Combined sources6
Helixi246 – 249Combined sources4
Beta strandi258 – 263Combined sources6
Turni264 – 266Combined sources3
Beta strandi269 – 273Combined sources5
Turni274 – 276Combined sources3
Beta strandi277 – 279Combined sources3
Helixi283 – 286Combined sources4
Helixi289 – 294Combined sources6
Helixi296 – 313Combined sources18
Helixi325 – 337Combined sources13
Turni341 – 343Combined sources3
Helixi345 – 348Combined sources4

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[»]
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
Contains 1 ADD domain.PROSITE-ProRule annotation
Contains 1 GATA-type zinc finger.PROSITE-ProRule annotation
Contains 1 PHD-type zinc finger.PROSITE-ProRule annotation
Contains 1 PWWP domain.PROSITE-ProRule annotation
Contains 1 SAM-dependent MTase C5-type domain.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.
OMAiTRHLNGE.
OrthoDBiEOG091G01TP.
PhylomeDBiQ9UBC3.
TreeFamiTF329039.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
3.40.50.150. 1 hit.
InterProiIPR025766. ADD.
IPR018117. C5_DNA_meth_AS.
IPR001525. C5_MeTfrase.
IPR030488. DNMT3B.
IPR000313. PWWP_dom.
IPR029063. SAM-dependent_MTases.
IPR011011. Znf_FYVE_PHD.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR23068:SF9. PTHR23068:SF9. 2 hits.
PfamiPF00145. DNA_methylase. 1 hit.
PF00855. PWWP. 1 hit.
[Graphical view]
SMARTiSM00293. PWWP. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 1 hit.
SSF57903. SSF57903. 1 hit.
PROSITEiPS51533. ADD. 1 hit.
PS00094. C5_MTASE_1. 1 hit.
PS50812. PWWP. 1 hit.
PS51679. SAM_MT_C5. 1 hit.
[Graphical view]

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 rs17123590dbSNPEnsembl.1
Natural variantiVAR_022579270S → P in ICF1. 1 PublicationCorresponds to variant rs121908947dbSNPEnsembl.1
Natural variantiVAR_011506585A → V in ICF1. 2 Publications1
Natural variantiVAR_011499603A → T in ICF1. 4 PublicationsCorresponds to variant rs121908943dbSNPEnsembl.1
Natural variantiVAR_011507606V → A in ICF1. 2 PublicationsCorresponds to variant rs146981624dbSNPEnsembl.1
Natural variantiVAR_011500663G → S in ICF1. 2 PublicationsCorresponds to variant rs121908942dbSNPEnsembl.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 rs121908941dbSNPEnsembl.1
Natural variantiVAR_011509766A → P in ICF1. 2 Publications1
Natural variantiVAR_011502806E → ESTP in ICF1. 1
Natural variantiVAR_011510814H → R in ICF1. 2 Publications1
Natural variantiVAR_011503817D → G in ICF1. 2 PublicationsCorresponds to variant rs121908939dbSNPEnsembl.1
Natural variantiVAR_011504818V → M in ICF1. 3 PublicationsCorresponds to variant rs121908940dbSNPEnsembl.1
Natural variantiVAR_022581840R → Q in ICF1. 1 PublicationCorresponds to variant rs121908946dbSNPEnsembl.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. Translation: CAB53069.1.
AL035071 Genomic DNA. Translation: CAB53070.1.
AL035071 Genomic DNA. Translation: CAB53071.1.
AL035071 Genomic DNA. Translation: CAM27373.1.
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

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. Translation: CAB53069.1.
AL035071 Genomic DNA. Translation: CAB53070.1.
AL035071 Genomic DNA. Translation: CAB53071.1.
AL035071 Genomic DNA. Translation: CAM27373.1.
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[»]
ProteinModelPortaliQ9UBC3.
SMRiQ9UBC3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi108126. 70 interactors.
DIPiDIP-30000N.
IntActiQ9UBC3. 26 interactors.
MINTiMINT-2820816.
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.

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.
GeneCardsiDNMT3B.
HGNCiHGNC:2979. DNMT3B.
HPAiCAB069896.
HPA001595.
MalaCardsiDNMT3B.
MIMi242860. phenotype.
602900. gene.
neXtProtiNX_Q9UBC3.
OpenTargetsiENSG00000088305.
Orphaneti2268. ICF syndrome.
PharmGKBiPA27446.
GenAtlasiSearch...

Phylogenomic databases

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

Enzyme and pathway databases

BioCyciZFISH:HS01597-MONOMER.
BRENDAi2.1.1.37. 2681.
ReactomeiR-HSA-212300. PRC2 methylates histones and DNA.
R-HSA-427413. NoRC negatively regulates rRNA expression.
R-HSA-5334118. DNA methylation.
SIGNORiQ9UBC3.

Miscellaneous databases

ChiTaRSiDNMT3B. human.
EvolutionaryTraceiQ9UBC3.
GeneWikiiDNMT3B.
GenomeRNAii1789.
PROiQ9UBC3.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000088305.
CleanExiHS_DNMT3B.
GenevisibleiQ9UBC3. HS.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
3.40.50.150. 1 hit.
InterProiIPR025766. ADD.
IPR018117. C5_DNA_meth_AS.
IPR001525. C5_MeTfrase.
IPR030488. DNMT3B.
IPR000313. PWWP_dom.
IPR029063. SAM-dependent_MTases.
IPR011011. Znf_FYVE_PHD.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PANTHERiPTHR23068:SF9. PTHR23068:SF9. 2 hits.
PfamiPF00145. DNA_methylase. 1 hit.
PF00855. PWWP. 1 hit.
[Graphical view]
SMARTiSM00293. PWWP. 1 hit.
[Graphical view]
SUPFAMiSSF53335. SSF53335. 1 hit.
SSF57903. SSF57903. 1 hit.
PROSITEiPS51533. ADD. 1 hit.
PS00094. C5_MTASE_1. 1 hit.
PS50812. PWWP. 1 hit.
PS51679. SAM_MT_C5. 1 hit.
[Graphical view]
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 historyi
Integrated into UniProtKB/Swiss-Prot: September 26, 2001
Last sequence update: May 1, 2000
Last modified: November 30, 2016
This is version 170 of the entry and version 1 of the sequence. [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. Human chromosome 20
    Human chromosome 20: entries, gene names and cross-references to MIM
  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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. 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.