Uniprot accession / id : Q9Z148  OR   Uniprot accession / id : Q96KQ7  OR   Uniprot accession / id : A0A0G2JRR0
 
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Latest PDB release
Entries released this week  (1)
revised
(1)
 
Entry Information
Entry status  (1)
REL
(30)
 
Experimental methods  (1)
X-ray diffraction
(30)
 
Authors  (170)
Arrowsmith CH
(9)
Brown PJ
(8)
Hashimoto N
(8)
Ito A
(8)
Jin J
(8)
Nakata A
(8)
Namie R
(8)
Nishigaya Y
(8)
Niwa H
(8)
Sato S
(8)
Shirai F
(8)
Shirouzu M
(8)
Sumiya T
(8)
Takase S
(8)
Umehara T
(8)
Vedadi M
(8)
Yoshida M
(8)
Dong A
(7)
Honma T
(7)
Koyama H
(7)
Sato T
(7)
Babault N
(6)
Chen X
(6)
Edwards AM
(6)
Liu J
(6)
Structural Genomics Consortium (SGC)
(6)
Wu H
(6)
Xiong Y
(6)
Zeng H
(6)
Bountra C
(5)
Li F
(5)
Sonoda T
(5)
Allis CD
(4)
Bellon S
(4)
Bellon SF
(4)
Bochkarev A
(4)
Cantone N
(4)
Cummings R
(4)
Hoelper D
(4)
Jain SU
(4)
Jayaram H
(4)
Kikuzato K
(4)
Lewis PW
(4)
Lundgren SM
(4)
Maemoto Y
(4)
Matsuoka S
(4)
Poy F
(4)
Weigelt J
(4)
Allali-Hassani A
(3)
Hiramoto K
(3)
Ihara K
(3)
Ishii K
(3)
Ishiyama T
(3)
Katagiri T
(3)
Katayama K
(3)
Suzuki M
(3)
Torihata M
(3)
Tsuda E
(3)
Yasumatsu I
(3)
Yotsumoto K
(3)
Andrews S
(2)
Barsyte D
(2)
Chau I
(2)
Chen H
(2)
Frye SV
(2)
Herold JM
(2)
Igarashi W
(2)
Jia S
(2)
Kireev DB
(2)
Kozieradzki I
(2)
Liu F
(2)
Loppnau P
(2)
Min J
(2)
Moresco JJ
(2)
Nagy PL
(2)
Senisterra G
(2)
Shan CM
(2)
Siarheyeva A
(2)
Tong L
(2)
Wang J
(2)
Wasney GA
(2)
Xu K
(2)
Yates JR
(2)
Yue JX
(2)
Amaya MF
(1)
Antoshenko T
(1)
Arata M
(1)
Arora K
(1)
BABAULT N
(1)
BROWN PJ
(1)
Barsyte-Lovejoy D
(1)
Briknarova K
(1)
Briknarová K
(1)
Campagna-Slater V
(1)
Chavda N
(1)
Chiang GG
(1)
Cocozaki A
(1)
DONG A
(1)
Dimaggio PA
(1)
Dombrovski L
(1)
 
More...
 
Homo / hetero assembly  (2)
homo
(23)
hetero
(7)
 
Assembly composition  (2)
protein structure
(23)
protein/protein complex
(7)
 
Assembly polymer count  (3)
dimer
(21)
monomer
(5)
tetramer
(4)
 
Resolution distribution
1.0 - 1.5
(4)
1.5 - 2
(20)
2.0 - 2.5
(3)
2.5 - 3
(3)
 
Release year distribution
2005 - 2010
(3)
2010 - 2015
(2)
2015 - 2020
(14)
2020 - 2025
(13)
2025 - 2030
(3)
 
Journal  (11)
J Med Chem
(8)
Bioorg Med Chem Lett
(5)
Proc Natl Acad Sci U S A
(4)
ACS Med Chem Lett
(2)
Bioorg Med Chem
(2)
Elife
(2)
PLoS One
(2)
To be published
(2)
J Struct Biol X
(1)
Nat Chem Biol
(1)
Nat Commun
(1)
 
Macromolecules
Organism superkingdom  (1)
Eukaryota
(30)
 
Organism name  (1)
Homo sapiens
(30)
 
Molecule name  (7)
Euchromatic histone-lysine N-methyltransferase 2
(30)
H3-K9-HMTase 3
(30)
HLA-B-associated transcript 8
(30)
Histone H3-K9 methyltransferase 3
(30)
Histone-lysine N-methyltransferase EHMT2
(30)
Lysine N-methyltransferase 1C
(30)
Protein G9a
(30)
 
Molecule type  (1)
Protein
(30)
 
Gene names  (6)
BAT8
(30)
C6orf30
(30)
EHMT2
(30)
G9A
(30)
KMT1C
(30)
NG36
(30)
 
Interacting Molecules  (2)
Histone H3.1
(6)
Chromobox protein homolog 3
(1)
 
Interacting ligands  (30)
ZN : ZINC ION
(29)
SAM : S-ADENOSYLMETHIONINE
(16)
SFG : SINEFUNGIN
(8)
EDO : 1,2-ETHANEDIOL
(5)
SAH : S-ADENOSYL-L-HOMOCYSTEINE
(5)
CL : CHLORIDE ION
(4)
TRS : 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
(4)
2OD : 5'-methoxy-6'-[3-(pyrrolidin-1-yl)propoxy]spiro[cyclobutane-1,3'-indol]-2'-amine
(1)
7KZ : N4-(1-methylpiperidin-4-yl)-N2-hexyl-6,7-dimethoxyquinazoline-2,4-diamine
(1)
7L6 : 6,7-dimethoxy-N-(1-methylpiperidin-4-yl)-2-(morpholin-4-yl)quinazolin-4-amine
(1)
90P : N~2~-cyclohexyl-N~4~-(1-ethylpiperidin-4-yl)-6,7-dimethoxy-N~2~-methylquinazoline-2,4-diamine
(1)
9HG : N~2~-cyclopentyl-6,7-dimethoxy-N~2~-methyl-N~4~-(1-methylpiperidin-4-yl)quinazoline-2,4-diamine
(1)
9HJ : 6,7-dimethoxy-N~2~-methyl-N~4~-(1-methylpiperidin-4-yl)-N~2~-propylquinazoline-2,4-diamine
(1)
A1AEB : (2R)-1-(azetidin-1-yl)-3-(2-methoxy-5-{[4-methyl-6-(methylamino)pyrimidin-2-yl]amino}phenoxy)propan-2-ol
(1)
A1L07 : 3,6,6-trimethyl-~{N}-[(2~{S})-1-[[4-(1-methylpiperidin-4-yl)oxyphenyl]amino]-1-oxidanylidene-hexan-2-yl]-4-oxidanylidene-5,7-dihydro-1~{H}-indole-2-carboxamide
(1)
A1L08 : 3,6,6-trimethyl-4-oxidanylidene-~{N}-[(2~{S})-1-oxidanylidene-1-[(phenylmethyl)amino]hexan-2-yl]-5,7-dihydro-1~{H}-indole-2-carboxamide
(1)
A1L09 : ~{N}-[(2~{S})-1-[[4-[(dimethylamino)methyl]phenyl]methylamino]-1-oxidanylidene-hexan-2-yl]-3,6,6-trimethyl-4-oxidanylidene-5,7-dihydro-1~{H}-indole-2-carboxamide
(1)
CIQ : 2-cyclohexyl-6-methoxy-N-[1-(1-methylethyl)piperidin-4-yl]-7-(3-pyrrolidin-1-ylpropoxy)quinazolin-4-amine
(1)
DXQ : 7-[3-(dimethylamino)propoxy]-6-methoxy-2-(4-methyl-1,4-diazepan-1-yl)-N-(1-methylpiperidin-4-yl)quinazolin-4-amine
(1)
F80 : N2-[4-methoxy-3-(2,3,4,7-tetrahydro-1H-azepin-5-yl)phenyl]-N4,6-dimethyl-pyrimidine-2,4-diamine
(1)
G4R : N-(6-methoxy-4-{[1-(propan-2-yl)piperidin-4-yl]amino}-7-[3-(pyrrolidin-1-yl)propoxy]quinazolin-2-yl)prop-2-enamide
(1)
G5U : N-(6-methoxy-4-{[1-(propan-2-yl)piperidin-4-yl]amino}-7-[3-(pyrrolidin-1-yl)propoxy]quinazolin-2-yl)propanamide
(1)
GOL : GLYCEROL
(1)
H30 : 5'-methoxy-6'-(1-methyl-2,3,4,7-tetrahydroazepin-5-yl)spiro[cyclobutane-1,3'-indole]-2'-amine
(1)
I5X : ~{N}-[(1~{S})-1-(1~{H}-benzimidazol-2-yl)-3-methylsulfanyl-propyl]-3,6,6-trimethyl-4-oxidanylidene-5,7-dihydro-1~{H}-indole-2-carboxamide
(1)
I6L : ~{N}-[(1~{S})-1-(1~{H}-benzimidazol-2-yl)pentyl]-3,6,6-trimethyl-4-oxidanylidene-5,7-dihydro-1~{H}-indole-2-carboxamide
(1)
I6S : 3,6,6-trimethyl-4-oxidanylidene-~{N}-[(2~{S})-1-oxidanylidene-1-phenylazanyl-hexan-2-yl]-5,7-dihydro-1~{H}-indole-2-carboxamide
(1)
I6Z : ~{N}-[(2~{S})-4-cyclopropyl-1-oxidanylidene-1-phenylazanyl-butan-2-yl]-3,6,6-trimethyl-4-oxidanylidene-5,7-dihydro-1~{H}-indole-2-carboxamide
(1)
J26 : N-[(2S)-1-[(4-cyanophenyl)amino]-4-cyclopropyl-1-oxidanylidene-butan-2-yl]-3,6,6-trimethyl-4-oxidanylidene-5,7-dihydro-1H-indole-2-carboxamide
(1)
N47 : N~2~-{4-methoxy-3-[3-(pyrrolidin-1-yl)propoxy]phenyl}-N~4~,6-dimethylpyrimidine-2,4-diamine
(1)
 
Function and Biology
EC number / name  (1)
2.1.1.367 : [Histone H3]-lysine(9) N-methyltransferase
(30)
 
Biological function  (4)
histone methyltransferase activity
(25)
p53 binding
(25)
protein-lysine N-methyltransferase activity
(25)
zinc ion binding
(25)
 
Biological cell component  (1)
nucleus
(24)
 
Sequence and Structure classification
CATH class  (1)
Mainly Beta
(15)
 
Representative Structures
Representative Structures
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Entries 1 to 10 of 30
Entries 1 to 10 of 30
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Crystal structure of EHMT2 SET domain in complex with compound 10
Suzuki M, Katayama K
ACS Med Chem Lett (2021) [PMID: 33488973  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: SAM    SAM    ZN    ZN    H30   
Assembly name: Histone-lysine N-methyltransferase EHMT2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-188603 (Preferred)   search this ID
PDBe-KB: Q96KQ7   
X-ray diffraction
1.8Å resolution
Released: 10 Feb 2021
Model geometry
Fit model/data
7dcf
7dcf
7dcf
Structure of G9a SET-domain with Histone H3K9norLeucine mutant peptide and bound S-adenosylmethionine
Jayaram H, Bellon SF, Poy F
Proc Natl Acad Sci U S A (2016) [PMID: 27185940  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: SAM    SAM    ZN    ZN   
Modified residues: NLE    NLE   
Assembly name: Histone-lysine N-methyltransferase EHMT2 and Histone H3.1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-159461 (Preferred)   search this ID
PDBe-KB: Q96KQ7    P68431   
X-ray diffraction
1.48Å resolution
Released: 14 Sep 2016
Model geometry
Fit model/data
5jiy
5jiy
5jiy
Structure of G9a SET-domain with Histone H3K9M mutant peptide and bound S-adenosylmethionine
Jayaram H, Bellon SF, Poy F
Proc Natl Acad Sci U S A (2016) [PMID: 27185940  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: SAM    SAM    ZN    ZN   
Assembly name: Histone-lysine N-methyltransferase EHMT2 and Histone H3.1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-159461 (Preferred)   search this ID
PDBe-KB: Q96KQ7    P68431   
X-ray diffraction
1.85Å resolution
Released: 6 Jul 2016
Model geometry
Fit model/data
5jin
5jin
5jin
Structure of human G9a SET-domain (EHMT2) in complex with inhibitor 17: N~2~-cyclopentyl-6,7-dimethoxy-N~2~-methyl-N~4~-(1-methylpiperidin-4-yl)quinazoline-2,4-diamine
Babault N, Xiong Y, Liu J, Jin J
Bioorg Med Chem (2017) [PMID: 28662962  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: 9HG    SAM    SAM    ZN    ZN    9HG   
Assembly name: Histone-lysine N-methyltransferase EHMT2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-188602 (Preferred)   search this ID
PDBe-KB: Q96KQ7   
X-ray diffraction
1.6Å resolution
Released: 19 Jul 2017
Model geometry
Fit model/data
5vse
5vse
5vse
Crystal structure of catalytic domain of G9a with MS012
DONG A, ZENG H, LIU J, XIONG Y, BABAULT N, JIN J, TEMPEL W, Bountra C, Arrowsmith CH, Edwards AM, WU H, BROWN PJ, Structural Genomics Consortium (SGC)
J Med Chem (2017) [PMID: 28135087  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: 7KZ    7KZ    SAM    SAM    ZN    ZN    CL   
Assembly name: Histone-lysine N-methyltransferase EHMT2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-188603 (Preferred)   search this ID
PDBe-KB: Q96KQ7   
X-ray diffraction
1.72Å resolution
Released: 21 Dec 2016
Model geometry
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5ttf
5ttf
5ttf
Structure of human G9a SET-domain (EHMT2) in complex with inhibitor MS0124
Babault N, Xiong Y, Liu J, Jin J
J Med Chem (2017) [PMID: 28135087  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: SAM    SAM    7L6    ZN    ZN    7L6   
Assembly name: Histone-lysine N-methyltransferase EHMT2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-188603 (Preferred)   search this ID
PDBe-KB: Q96KQ7   
X-ray diffraction
2.6Å resolution
Released: 22 Feb 2017
Model geometry
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5tuy
5tuy
5tuy
Structure of G9a SET-domain with Histone H3K9Ala mutant peptide and bound S-adenosylmethionine
Jayaram H, Bellon SF, Poy F
Proc Natl Acad Sci U S A (2016) [PMID: 27185940  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: SAM    SAM    ZN    ZN   
Assembly name: Histone-lysine N-methyltransferase EHMT2 and Histone H3.1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-159461 (Preferred)   search this ID
PDBe-KB: Q96KQ7    P68431   
X-ray diffraction
1.67Å resolution
Released: 6 Jul 2016
Model geometry
Fit model/data
5jhn
5jhn
5jhn
Structure of human G9a SET-domain (EHMT2) in complex with inhibitor 13
Babault N, Xiong Y, Liu J, Jin J
Bioorg Med Chem (2017) [PMID: 28662962  ]
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: SAM    SAM    9HJ    ZN    ZN    9HJ   
Assembly name: Histone-lysine N-methyltransferase EHMT2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-188603 (Preferred)   search this ID
PDBe-KB: Q96KQ7   
X-ray diffraction
1.4Å resolution
Released: 12 Jul 2017
Model geometry
Fit model/data
5vsc
5vsc
5vsc
Structure of G9a SET-domain with Histone H3K9M peptide and excess SAH
Jayaram H, Bellon SF, Poy F
Proc Natl Acad Sci U S A (2016) [PMID: 27185940  ]
Source organism: Homo sapiens  
Assembly composition: protein/protein complex
Bound ligands: SAM    SAM    ZN    ZN   
Assembly name: Histone-lysine N-methyltransferase EHMT2 and Histone H3.1 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-159461 (Preferred)   search this ID
PDBe-KB: Q96KQ7    P68431   
X-ray diffraction
1.72Å resolution
Released: 6 Jul 2016
Model geometry
Fit model/data
5jj0
5jj0
5jj0
Crystal structure of catalytic domain of G9a with MS0105
Dong A, Zeng H, Liu J, Xiong Y, Babault N, Jin J, Walker JR, Bountra C, Arrowsmith CH, Edwards AM, Wu H, Brown PJ, Structural Genomics Consortium (SGC)
To be published
Source organism: Homo sapiens  
Assembly composition: protein only structure
Bound ligands: SAM    SAM    90P    GOL    ZN    90P    ZN   
Assembly name: Histone-lysine N-methyltransferase EHMT2 (Preferred)   search this complex
PDBe complex ID: PDB-CPX-188603 (Preferred)   search this ID
PDBe-KB: Q96KQ7   
X-ray diffraction
1.74Å resolution
Released: 21 Mar 2018
Model geometry
Fit model/data
5v9i
5v9i
5v9i
Entries 1 to 10 of 30
Entries 1 to 10 of 30