SMTL ID : 7ea8.1

Human SETD2 bound to a nucleosome containing oncohistone mutations

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-2-2-2-mer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 7 residues within 4Å: Chain A: C.48, C.65, C.78, C.82, C.88, N.90 Ligands: ZN.2 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.65, A:C.78, A:C.82, A:C.88 ZN.2: 5 residues within 4Å: Chain A: C.48, C.50, C.65, C.69 Ligands: ZN.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.48, A:C.50, A:C.65, A:C.69 ZN.3: 5 residues within 4Å: Chain A: H.178, C.180, C.227, C.229, C.234 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:C.227, A:C.234

1 x SAM: S-ADENOSYLMETHIONINE(Covalent)

SAM.4: 14 residues within 4Å: Chain A: K.109, W.111, I.151, H.152, Y.153, Y.154, R.174, F.175, M.176, N.177, Y.215, Q.225, K.226, C.227 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.109, A:W.111, A:Y.153, A:Y.153, A:R.174, A:Q.225 Salt bridges: A:H.152

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Liu, Y. et al., Cryo-EM structure of SETD2/Set2 methyltransferase bound to a nucleosome containing oncohistone mutations. Cell Discov (2021)

Release Date

2021-07-14

Peptides

Histone-lysine N-methyltransferase SETD2: A
Histone H3.3: BF
Histone H4: CG
Histone H2A type 1-D: DH
Histone H2B type 2-E: EI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
A

F
E

C
B

G
F

D
C

H
G

E
D

I
H

Histone-lysine N-methyltransferase SETD2

Histone H3.3

Histone H4

Histone H2A type 1-D

Histone H2B type 2-E

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