SMTL ID : 7qzy.1

ATAD2 in complex with FragLite29

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: R.9, R.12, I.13, 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 SO4.3: 1 residues within 4Å: Chain A: K.59 No protein-ligand interaction detected (PLIP)

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

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

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

EDO.4: 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.5: 4 residues within 4Å: Chain A: S.55, S.58, K.59, L.62 No protein-ligand interaction detected (PLIP) EDO.6: 1 residues within 4Å: Chain A: S.1 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.1 EDO.7: 3 residues within 4Å: Chain A: R.104, D.105, Y.108 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.105 Water bridges: A:D.105 EDO.8: 6 residues within 4Å: Chain A: V.68, K.69, L.72, I.111, L.115, E.120 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.120 EDO.9: 3 residues within 4Å: Chain A: R.94, R.97 Ligands: V3U.11 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.97, A:R.97 Water bridges: A:R.94 EDO.10: 4 residues within 4Å: Chain A: H.20, A.23, I.24, I.57 No protein-ligand interaction detected (PLIP)

1 x V3U: 4-bromanyl-1-(2-methoxyethyl)pyridin-2-one(Non-covalent)

V3U.11: 6 residues within 4Å: Chain A: L.83, R.94, R.97, H.98, C.101 Ligands: EDO.9 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.97

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

2023-03-22

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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