SMTL ID : 7w6l.1

The crystal structure of MLL3-RBBP5-ASH2L in complex with H3K4me0 peptide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.26 Å

Oligo State

hetero-2-2-2-mer

Ligands

1 x ALA- ARG- THR- LYS- GLN- THR- ALA: Histone H3.3C(Non-covalent)

ALA-ARG-THR-LYS-GLN-THR-ALA.1: 20 residues within 4Å: Chain C: Y.48, A.58, N.59, E.62, V.72, M.74, F.75, R.76, R.93, A.105, E.106, V.107, Y.132, Y.134, K.135, F.136, D.137, E.139, I.145 Ligands: SAH.3 15 PLIP interactions: 15 interactions with chain C Hydrophobic interactions: C:M.74, C:F.75, C:F.75, C:Y.134, C:F.136 Hydrogen bonds: C:N.59, C:E.62, C:M.74, C:R.76, C:R.76, C:R.93, C:Y.134, C:K.135 Water bridges: C:Y.134 Salt bridges: C:E.139

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain C: C.99, C.147, C.149, C.154 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.99, C:C.147, C:C.149, C:C.154 ZN.4: 4 residues within 4Å: Chain E: C.99, C.147, C.149, C.154 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.99, E:C.147, E:C.149, E:C.154

2 x SAH: S-ADENOSYL-L-HOMOCYSTEINE(Non-covalent)

SAH.3: 18 residues within 4Å: Chain C: I.28, Q.29, G.30, L.31, V.72, Y.73, R.93, Y.94, I.95, N.96, H.97, Y.134, P.146, C.147, H.148, C.149, M.158 Ligands: ALA-ARG-THR-LYS-GLN-THR-ALA.1 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:Q.29, C:L.31, C:L.31, C:V.72, C:Y.73, C:N.96, C:H.97, C:H.97, C:H.148 SAH.5: 16 residues within 4Å: Chain E: I.28, Q.29, G.30, L.31, Y.73, R.93, Y.94, I.95, N.96, H.97, Y.134, P.146, C.147, H.148, C.149, M.158 8 PLIP interactions: 8 interactions with chain E Hydrogen bonds: E:Q.29, E:L.31, E:L.31, E:Y.73, E:N.96, E:H.97, E:H.97, E:H.148

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, Y. et al., Structural basis for product specificities of MLL family methyltransferases. Mol.Cell (2022)

Release Date

2022-09-07

Peptides

Set1/Ash2 histone methyltransferase complex subunit ASH2: AB
Histone-lysine N-methyltransferase 2C: CE
Retinoblastoma-binding protein 5: DF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

E
E

D
D

F
F

Set1/Ash2 histone methyltransferase complex subunit ASH2

Histone-lysine N-methyltransferase 2C

Retinoblastoma-binding protein 5

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