SMTL ID : 5ye4.2 (1 other biounit)

Crystal structure of the complex of di-acetylated histone H4 and 1A9D7 Fab fragment

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-1-mer

Ligands

12 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: H.162 Chain B: N.137 Ligands: ZN.3, ZN.4 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.162 ZN.2: 1 residues within 4Å: Chain A: E.89 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.89, A:E.89, H2O.5 ZN.3: 4 residues within 4Å: Chain A: H.162 Chain B: D.166 Ligands: ZN.1, ZN.7 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Metal complexes: A:H.162, B:D.166 ZN.4: 3 residues within 4Å: Chain A: H.162 Chain B: N.137 Ligands: ZN.1 No protein-ligand interaction detected (PLIP) ZN.5: 1 residues within 4Å: Chain B: H.188 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.188, H2O.8, H2O.14, H2O.14 ZN.6: 1 residues within 4Å: Chain B: H.197 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:H.197, H2O.8, H2O.14, H2O.14, H2O.15 ZN.7: 2 residues within 4Å: Chain B: D.166 Ligands: ZN.3 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.166, B:D.166, H2O.14 ZN.8: 2 residues within 4Å: Chain B: D.28, D.92 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.92, B:D.92, H2O.8, H2O.10, H2O.16 ZN.9: 2 residues within 4Å: Chain B: D.1, Q.3 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.1, B:D.1, H2O.9 ZN.10: 2 residues within 4Å: Chain B: D.142, K.198 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.142, B:D.142, H2O.8, H2O.9 ZN.11: 1 residues within 4Å: Chain B: E.79 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:E.79, B:E.79 ZN.12: 2 residues within 4Å: Chain B: K.148, E.194 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.194, H2O.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Handoko, L. et al., JQ1 affects BRD2-dependent and independent transcription regulation without disrupting H4-hyperacetylated chromatin states. Epigenetics (2018)

Release Date

2018-08-22

Peptides

1A9D7 VH CH1 chain: A
1A9D7 L chain: B
di-acetylated histone H4: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
F

1A9D7 VH CH1 chain

1A9D7 L chain

di-acetylated histone H4

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