SMTL ID : 7qx1.1

ATAD2 in complex with FragLite7

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.49 Å

Oligo State

monomer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 3 residues within 4Å: Chain A: R.9, R.12, R.16 5 PLIP interactions: 5 interactions with chain A Water bridges: A:R.12, A:H.63 Salt bridges: A:R.9, A:R.12, A:R.16 SO4.10: 2 residues within 4Å: Chain A: K.59, K.64 4 PLIP interactions: 4 interactions with chain A Water bridges: A:K.59, A:K.59 Salt bridges: A:K.59, A:K.64

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 2 residues within 4Å: Chain A: L.95, R.99 Ligand excluded by PLIP

2 x HHQ: 4-iodanyl-3~{H}-pyridin-2-one(Non-covalent)

HHQ.3: 4 residues within 4Å: Chain A: T.45, V.46, K.48, E.84 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.48 HHQ.4: 9 residues within 4Å: Chain A: V.30, F.31, V.35, V.40, Y.43, A.82, Y.85, N.86, I.96 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.30, A:V.35, A:I.96 Hydrogen bonds: A:N.86, A:N.86 Water bridges: A:Y.43 pi-Stacking: A:Y.43

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.5: 7 residues within 4Å: Chain A: E.10, L.11, F.14, E.114, L.115, D.116, F.119 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.10, A:D.116 EDO.6: 6 residues within 4Å: Chain A: T.19, H.20, A.23, I.24, I.57 Ligands: EDO.7 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:H.20 EDO.7: 4 residues within 4Å: Chain A: R.16, H.20, I.57 Ligands: EDO.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.16 Water bridges: A:R.16 EDO.8: 7 residues within 4Å: Chain A: V.68, K.69, L.72, I.111, L.115, E.120, E.124 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.69 Water bridges: A:I.111 EDO.9: 6 residues within 4Å: Chain A: K.59, K.64, Y.65, D.70, R.73, D.74 1 PLIP interactions: 1 interactions with chain A Water bridges: A:K.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Davison, G. et al., Mapping Ligand Interactions of Bromodomains BRD4 and ATAD2 with FragLites and PepLites─Halogenated Probes of Druglike and Peptide-like Molecular Interactions. J.Med.Chem. (2022)

Release Date

2022-11-23

Peptides

ATPase family AAA domain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

ATPase family AAA domain-containing protein 2

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