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Reviewed, UniProtKB/Swiss-Prot O88509 (DNM3B_MOUSE)

Last modified June 16, 2009. Version 79. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data | Customize display text xml rdf/xml gff fasta
Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Alternative products · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents

Names and origin

Protein namesRecommended name:
    DNA (cytosine-5)-methyltransferase 3B
      Short name=Dnmt3b
    EC=2.1.1.37
Alternative name(s):
    DNA methyltransferase MmuIIIB
      Short name=DNA MTase MmuIIIB
      Short name=M.MmuIIIB
Gene names
Name: Dnmt3b
OrganismMus musculus (Mouse)
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMus

Protein attributes

Sequence length859 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is not processed.
Protein existenceEvidence at protein level.

General annotation (Comments)

Function

Required for genome wide de novo methylation and is essential for development. DNA methylation is coordinated with methylation of histones. Ref.3 Ref.7

Catalytic activity

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

Subunit structure

Interacts with SETDB1, UBL1 and UBE2I9. Interacts with DNMT1 and DNMT3A By similarity. Interacts with SUV39H1. Interacts with the PRC2/EED-EZH2 complex.

Subcellular location

Nucleus Probable.

Developmental stage

Highly expressed, at E7.5, in the embryonic ectoderm, neural ectoderm, and chorionic ectoderm; a weak expression is also detected in mesodermal and endodermal cells. At later stages, the expression is detected predominantly in the forebrain and eyes but weakly throughout the embryo. Ref.3

Sequence similarities

Belongs to the C5-methyltransferase family.

Contains 1 ADD-type zinc finger.

Contains 1 PWWP domain.

Alternative products

This entry describes 4 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: O88509-1)

Also known as: 5;

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.
Isoform 2 (identifier: O88509-2)

Also known as: 6;

The sequence of this isoform differs from the canonical sequence as follows:
     363-382: Missing.
Isoform 3 (identifier: O88509-3)

Also known as: 8;

The sequence of this isoform differs from the canonical sequence as follows:
     363-382: Missing.
     750-812: Missing.
Isoform 4 (identifier: O88509-4)

Also known as: 7;

The sequence of this isoform differs from the canonical sequence as follows:
     750-812: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 859859DNA (cytosine-5)-methyltransferase 3B
PRO_0000088046

Regions

Domain232 – 29059PWWP
Zinc finger440 – 53293ADD-type
Region1 – 305305Interaction with DNMT1 and DNMT3A By similarity
Region440 – 53293Interaction with the PRC2/EED-EZH2 complex
Compositional bias160 – 1656Poly-Arg

Sites

Active site6571 By similarity

Natural variations

Alternative sequence363 – 38220Missing in isoform 2 and isoform 3.
VSP_005642
Alternative sequence750 – 81263Missing in isoform 3 and isoform 4.
VSP_005643

Experimental info

Sequence conflict217 – 2182RD → IY in AAF74515. Ref.2
Sequence conflict217 – 2182RD → IY in AAF74516. Ref.2

Secondary structure

.......................... 859
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 (5) [UniParc].

Last modified May 1, 2000. Version 2.
Checksum: 93E334D9FBCC590E

FASTA85997,228
        10         20         30         40         50         60 
MKGDSRHLNE EEGASGYEEC IIVNGNFSDQ SSDTKDAPSP PVLEAICTEP VCTPETRGRR 

        70         80         90        100        110        120 
SSSRLSKREV SSLLNYTQDM TGDGDRDDEV DDGNGSDILM PKLTRETKDT RTRSESPAVR 

       130        140        150        160        170        180 
TRHSNGTSSL ERQRASPRIT RGRQGRHHVQ EYPVEFPATR SRRRRASSSA STPWSSPASV 

       190        200        210        220        230        240 
DFMEEVTPKS VSTPSVDLSQ DGDQEGMDTT QVDAESRDGD STEYQDDKEF GIGDLVWGKI 

       250        260        270        280        290        300 
KGFSWWPAMV VSWKATSKRQ AMPGMRWVQW FGDGKFSEIS ADKLVALGLF SQHFNLATFN 

       310        320        330        340        350        360 
KLVSYRKAMY HTLEKARVRA GKTFSSSPGE SLEDQLKPML EWAHGGFKPT GIEGLKPNKK 

       370        380        390        400        410        420 
QPVVNKSKVR RSDSRNLEPR RRENKSRRRT TNDSAASESP PPKRLKTNSY GGKDRGEDEE 

       430        440        450        460        470        480 
SRERMASEVT NNKGNLEDRC LSCGKKNPVS FHPLFEGGLC QSCRDRFLEL FYMYDEDGYQ 

       490        500        510        520        530        540 
SYCTVCCEGR ELLLCSNTSC CRCFCVECLE VLVGAGTAED AKLQEPWSCY MCLPQRCHGV 

       550        560        570        580        590        600 
LRRRKDWNMR LQDFFTTDPD LEEFEPPKLY PAIPAAKRRP IRVLSLFDGI ATGYLVLKEL 

       610        620        630        640        650        660 
GIKVEKYIAS EVCAESIAVG TVKHEGQIKY VNDVRKITKK NIEEWGPFDL VIGGSPCNDL 

       670        680        690        700        710        720 
SNVNPARKGL YEGTGRLFFE FYHLLNYTRP KEGDNRPFFW MFENVVAMKV NDKKDISRFL 

       730        740        750        760        770        780 
ACNPVMIDAI KVSAAHRARY FWGNLPGMNR PVMASKNDKL ELQDCLEFSR TAKLKKVQTI 

       790        800        810        820        830        840 
TTKSNSIRQG KNQLFPVVMN GKDDVLWCTE LERIFGFPAH YTDVSNMGRG ARQKLLGRSW 

       850 
SVPVIRHLFA PLKDYFACE 

« Hide

Isoform 2 (6).

Checksum: 59BF48AB459A1298
Show »

FASTA83994,793
Isoform 3 (8).

Checksum: 211E2DE8BF06C48E
Show »

FASTA77687,586
Isoform 4 (7).

Checksum: 0B7D93B4D802744E
Show »

FASTA79690,021

References

[1]"Cloning and characterization of a family of novel mammalian DNA (cytosine-5) methyltransferases."
Okano M., Xie S., Li E.
Nat. Genet. 19:219-220(1998) [PubMed: 9662389] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1; 2 AND 3).
[2]"Cloning of full-length Dnmt3b cDNA and its alternative splicing isoforms in mouse embryo."
Yin B., Chen Y., Zhu N., Wu G., Shen Y.
Zhongguo Yi Xue Ke Xue Yuan Xue Bao 21:431-438(1999) [PubMed: 12567489] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1; 2; 3 AND 4).
Strain: KM.
Tissue: Embryo.
[3]"DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development."
Okano M., Bell D.W., Haber D.A., Li E.
Cell 99:247-257(1999) [PubMed: 10555141] [Abstract]
Cited for: FUNCTION, DEVELOPMENTAL STAGE.
[4]"Suv39h-mediated histone H3 lysine 9 methylation directs DNA methylation to major satellite repeats at pericentric heterochromatin."
Lehnertz B., Ueda Y., Derijck A.A.H.A., Braunschweig U., Perez-Burgos L., Kubicek S., Chen T., Li E., Jenuwein T., Peters A.H.F.M.
Curr. Biol. 13:1192-1200(2003) [PubMed: 12867029] [Abstract]
Cited for: INTERACTION WITH SUV39H1.
[5]"The Polycomb group protein EZH2 directly controls DNA methylation."
Vire E., Brenner C., Deplus R., Blanchon L., Fraga M., Didelot C., Morey L., Van Eynde A., Bernard D., Vanderwinden J.-M., Bollen M., Esteller M., Di Croce L., de Launoit Y., Fuks F.
Nature 439:871-874(2006) [PubMed: 16357870] [Abstract]
Cited for: INTERACTION WITH EED AND EZH2.
[6]Erratum
Vire E., Brenner C., Deplus R., Blanchon L., Fraga M., Didelot C., Morey L., Van Eynde A., Bernard D., Vanderwinden J.-M., Bollen M., Esteller M., Di Croce L., de Launoit Y., Fuks F.
Nature 446:824-824(2006)
[7]"The PWWP domain of mammalian DNA methyltransferase Dnmt3b defines a new family of DNA-binding folds."
Qiu C., Sawada K., Zhang X., Cheng X.
Nat. Struct. Biol. 9:217-224(2002) [PubMed: 11836534] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS) OF 219-362, FUNCTION, INTERACTION WITH DNA.
+Additional computationally mapped references.

Cross-references

Sequence databases

AF068626 mRNA. Translation: AAC40178.2.
AF068627 mRNA. Translation: AAC40179.2.
AF068628 mRNA. Translation: AAC40180.2.
AF151969 mRNA. Translation: AAF74515.1.
AF151970 mRNA. Translation: AAF74516.1.
AF151971 mRNA. Translation: AAF74517.1.
AF151972 mRNA. Translation: AAF74518.1.
AF151973 mRNA. Translation: AAF74519.1.
AF151974 mRNA. Translation: AAF74520.1.
AF151975 mRNA. Translation: AAF74521.1.
AF151976 mRNA. Translation: AAF74522.1.
IPIIPI00228733.
IPI00268106.
IPI00276159.
IPI00331143.
RefSeqNP_001003960.2.
NP_001003961.2.
NP_001003963.2.
NP_034198.3.
UniGeneMm.89772

3D structure databases

EntryMethodResolution (Å)ChainPositionsPDBsum
1KHCX-ray1.80A219-362[»]
ModBaseSearch...

Protein family/group databases

REBASE3748. M.MmuDnmt3B.

PTM databases

PhosphoSiteO88509.

Genome annotation databases

EnsemblENSMUSG00000027478. Mus musculus. [Contig view]
GeneID13436.
KEGGmmu:13436.

Organism-specific databases

MGIMGI:1261819. Dnmt3b.

Phylogenomic databases

HOVERGENO88509.

Enzyme and pathway databases

BRENDA2.1.1.37. 244.

Gene expression databases

ArrayExpressO88509.
BgeeO88509.
CleanExMM_DNMT3B.
GermOnlineENSMUSG00000027478. Mus musculus.

Family and domain databases

InterProIPR001525. C5_DNA_meth.
IPR018117. C5_DNA_meth_AS.
IPR000313. PWWP.
[Graphical view]
PfamPF00145. DNA_methylase. 1 hit.
PF00855. PWWP. 1 hit.
[Graphical view]
SMARTSM00293. PWWP. 1 hit.
[Graphical view]
PROSITEPS00094. C5_MTASE_1. 1 hit.
PS00095. C5_MTASE_2. False negative.
PS50812. PWWP. 1 hit.
[Graphical view]
ProtoNetSearch...

Other Resources

NextBio283873.
SOURCESearch...

Entry information

Entry nameDNM3B_MOUSE
AccessionPrimary (citable) accession number: O88509
Secondary accession number(s): O88510, O88511
Entry history
Integrated into UniProtKB/Swiss-Prot: September 26, 2001
Last sequence update: May 1, 2000
Last modified: June 16, 2009
This is version 79 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation projectHPI (Human Proteome Initiative)

Relevant documents

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Alternative products · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents