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Protein

Histone-lysine N-methyltransferase SETDB2

Gene

Setdb2

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Histone methyltransferase involved in left-right axis specification in early development and mitosis. Specifically trimethylates 'Lys-9' of histone H3 (H3K9me3). H3K9me3 is a specific tag for epigenetic transcriptional repression that recruits HP1 (CBX1, CBX3 and/or CBX5) proteins to methylated histones. Contributes to H3K9me3 in both the interspersed repetitive elements and centromere-associated repeats. Plays a role in chromosome condensation and segregation during mitosis (By similarity).By similarity

Catalytic activityi

S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi296Zinc 1By similarity1
Metal bindingi296Zinc 2By similarity1
Metal bindingi298Zinc 1By similarity1
Metal bindingi302Zinc 1By similarity1
Metal bindingi302Zinc 3By similarity1
Metal bindingi308Zinc 1By similarity1
Metal bindingi310Zinc 2By similarity1
Metal bindingi348Zinc 2By similarity1
Metal bindingi348Zinc 3By similarity1
Metal bindingi352Zinc 2By similarity1
Metal bindingi354Zinc 3By similarity1
Metal bindingi359Zinc 3By similarity1
Binding sitei642S-adenosyl-L-methioninePROSITE-ProRule annotation1
Metal bindingi648Zinc 4By similarity1
Metal bindingi701Zinc 4By similarity1
Metal bindingi703Zinc 4By similarity1
Metal bindingi708Zinc 4By similarity1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Chromatin regulator, Developmental protein, Methyltransferase, Transferase

Keywords - Biological processi

Cell cycle, Cell division, Mitosis

Keywords - Ligandi

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

Enzyme and pathway databases

ReactomeiR-MMU-3214841. PKMTs methylate histone lysines.

Names & Taxonomyi

Protein namesi
Recommended name:
Histone-lysine N-methyltransferase SETDB2 (EC:2.1.1.43)
Alternative name(s):
SET domain bifurcated 2
Gene namesi
Name:Setdb2
Synonyms:Gm293
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 14

Organism-specific databases

MGIiMGI:2685139. Setdb2.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Chromosome, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002818241 – 713Histone-lysine N-methyltransferase SETDB2Add BLAST713

Proteomic databases

PaxDbiQ8C267.
PRIDEiQ8C267.

PTM databases

PhosphoSitePlusiQ8C267.

Expressioni

Gene expression databases

BgeeiENSMUSG00000071350.
CleanExiMM_SETDB2.
ExpressionAtlasiQ8C267. baseline and differential.
GenevisibleiQ8C267. MM.

Interactioni

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000093450.

Structurei

3D structure databases

ProteinModelPortaliQ8C267.
SMRiQ8C267.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini161 – 233MBDPROSITE-ProRule annotationAdd BLAST73
Domaini294 – 367Pre-SETPROSITE-ProRule annotationAdd BLAST74
Domaini370 – 688SETPROSITE-ProRule annotationAdd BLAST319

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni380 – 382S-adenosyl-L-methionine bindingBy similarity3
Regioni645 – 646S-adenosyl-L-methionine bindingBy similarity2

Domaini

In the pre-SET domain, Cys residues bind 3 zinc ions that are arranged in a triangular cluster; some of these Cys residues contribute to the binding of two zinc ions within the cluster.By similarity

Sequence similaritiesi

Belongs to the class V-like SAM-binding methyltransferase superfamily.PROSITE-ProRule annotation
Contains 1 MBD (methyl-CpG-binding) domain.PROSITE-ProRule annotation
Contains 1 pre-SET domain.PROSITE-ProRule annotation
Contains 1 SET domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG1141. Eukaryota.
COG2940. LUCA.
GeneTreeiENSGT00780000121845.
HOGENOMiHOG000060314.
HOVERGENiHBG106688.
InParanoidiQ8C267.
OMAiKCHFQRR.
OrthoDBiEOG091G014F.
PhylomeDBiQ8C267.
TreeFamiTF106411.

Family and domain databases

Gene3Di3.30.890.10. 1 hit.
InterProiIPR016177. DNA-bd_dom.
IPR001739. Methyl_CpG_DNA-bd.
IPR007728. Pre-SET_dom.
IPR001214. SET_dom.
[Graphical view]
PfamiPF01429. MBD. 1 hit.
PF05033. Pre-SET. 1 hit.
PF00856. SET. 1 hit.
[Graphical view]
SMARTiSM00391. MBD. 1 hit.
SM00468. PreSET. 1 hit.
SM00317. SET. 1 hit.
[Graphical view]
SUPFAMiSSF54171. SSF54171. 1 hit.
PROSITEiPS50982. MBD. 1 hit.
PS50867. PRE_SET. 1 hit.
PS50280. SET. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q8C267-1) [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
MEEKNGDAKT FWMELQDDGK VDLMFEKTQN VLHSLKQKIK DGSATNGDYV
60 70 80 90 100
QAMNLVNEAT LSNTQTLEKG MFITYSNPEV NTHRSNHTPV TQSEQENKSS
110 120 130 140 150
AVPSASCDNS CPKGCTIPSP GKKVFLPVKN KADNLVKKEA PLHISFHRHI
160 170 180 190 200
CSRTCLMETP LSLKGENPLQ LPIRCHFQRR HAKTNSHSSA LHVNYKTPCG
210 220 230 240 250
RNLRNMEEVF HYLLETECNF LFTDNFSFNT YVQLTRNHPK QNEVVSDVDI
260 270 280 290 300
SNGVESVSIP FCNEIDNSKL PRFKYRNTVW PRIYHLNFSN MFSDSCDCSE
310 320 330 340 350
GCIDIKKCAC LQLTAKNAKA CPLSSDGECA GYKYKRLQRL IPTGIYECNL
360 370 380 390 400
LCKCNKQMCQ NRVIQHGVRV RLQVFKSEKK GWGVRCLDDI DKGTFVCIYS
410 420 430 440 450
GRLLRRATPE KTNIGENGRE QQHIVKNSFS KKRKLEVVCS DCDAHCDSPK
460 470 480 490 500
AEDCPPKLSG DLKEPAVEMN HRNISRTQHH SVIRRTKSKT TVFHYSEKNM
510 520 530 540 550
GFVCSDSAAP EDKNGFKPAQ EHVNSEARRA HEDLSSNPAG DSEDTQLTES
560 570 580 590 600
DVIDITASRE DSAPAYRCKH ATIVDRKDTK QVLEVPGKKS QEEEPAASQS
610 620 630 640 650
QQALCDEELP SERTKIPSAS LMQLSKESLF LLDASKEGNV GRFLNHSCCP
660 670 680 690 700
NLWVQNVFVE THDRNFPLVA FFTNRYVKAR TELTWDYGYE AGATPAKEIL
710
CQCGFNKCRK KLI
Length:713
Mass (Da):80,636
Last modified:April 3, 2007 - v2
Checksum:iC4E750F01ED4231A
GO
Isoform 2 (identifier: Q8C267-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     70-86: GMFITYSNPEVNTHRSN → D
     119-156: SPGKKVFLPV...HRHICSRTCL → YVYVIRVSAP...NSRCLCLLVN
     157-713: Missing.

Note: No experimental confirmation available.
Show »
Length:140
Mass (Da):15,493
Checksum:i37E19B746B1A9205
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_02406370 – 86GMFIT…THRSN → D in isoform 2. 1 PublicationAdd BLAST17
Alternative sequenceiVSP_024064119 – 156SPGKK…SRTCL → YVYVIRVSAPSVCCLLNIPK SLTPFIKFNSRCLCLLVN in isoform 2. 1 PublicationAdd BLAST38
Alternative sequenceiVSP_024065157 – 713Missing in isoform 2. 1 PublicationAdd BLAST557

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK089197 mRNA. Translation: BAC40789.1.
AC114007 Genomic DNA. No translation available.
UniGeneiMm.205022.

Genome annotation databases

EnsembliENSMUST00000095775; ENSMUSP00000093450; ENSMUSG00000071350. [Q8C267-1]
ENSMUST00000111253; ENSMUSP00000106884; ENSMUSG00000071350. [Q8C267-2]
UCSCiuc007uei.1. mouse. [Q8C267-1]
uc007uej.1. mouse. [Q8C267-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK089197 mRNA. Translation: BAC40789.1.
AC114007 Genomic DNA. No translation available.
UniGeneiMm.205022.

3D structure databases

ProteinModelPortaliQ8C267.
SMRiQ8C267.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000093450.

PTM databases

PhosphoSitePlusiQ8C267.

Proteomic databases

PaxDbiQ8C267.
PRIDEiQ8C267.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000095775; ENSMUSP00000093450; ENSMUSG00000071350. [Q8C267-1]
ENSMUST00000111253; ENSMUSP00000106884; ENSMUSG00000071350. [Q8C267-2]
UCSCiuc007uei.1. mouse. [Q8C267-1]
uc007uej.1. mouse. [Q8C267-2]

Organism-specific databases

MGIiMGI:2685139. Setdb2.

Phylogenomic databases

eggNOGiKOG1141. Eukaryota.
COG2940. LUCA.
GeneTreeiENSGT00780000121845.
HOGENOMiHOG000060314.
HOVERGENiHBG106688.
InParanoidiQ8C267.
OMAiKCHFQRR.
OrthoDBiEOG091G014F.
PhylomeDBiQ8C267.
TreeFamiTF106411.

Enzyme and pathway databases

ReactomeiR-MMU-3214841. PKMTs methylate histone lysines.

Miscellaneous databases

PROiQ8C267.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000071350.
CleanExiMM_SETDB2.
ExpressionAtlasiQ8C267. baseline and differential.
GenevisibleiQ8C267. MM.

Family and domain databases

Gene3Di3.30.890.10. 1 hit.
InterProiIPR016177. DNA-bd_dom.
IPR001739. Methyl_CpG_DNA-bd.
IPR007728. Pre-SET_dom.
IPR001214. SET_dom.
[Graphical view]
PfamiPF01429. MBD. 1 hit.
PF05033. Pre-SET. 1 hit.
PF00856. SET. 1 hit.
[Graphical view]
SMARTiSM00391. MBD. 1 hit.
SM00468. PreSET. 1 hit.
SM00317. SET. 1 hit.
[Graphical view]
SUPFAMiSSF54171. SSF54171. 1 hit.
PROSITEiPS50982. MBD. 1 hit.
PS50867. PRE_SET. 1 hit.
PS50280. SET. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSETB2_MOUSE
AccessioniPrimary (citable) accession number: Q8C267
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: April 3, 2007
Last modified: November 30, 2016
This is version 108 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. 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.