SMTL ID : 7qum.1

ATAD2 in complex with FragLite2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 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 SO4.9: 2 residues within 4Å: Chain A: Q.49, K.59 5 PLIP interactions: 5 interactions with chain A Water bridges: A:Q.49, A:K.59, A:K.59, A:K.59 Salt bridges: A:K.59

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

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

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

EDO.3: 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.4: 5 residues within 4Å: Chain A: T.19, H.20, A.23, I.24, I.57 No protein-ligand interaction detected (PLIP) EDO.5: 8 residues within 4Å: Chain A: T.67, V.68, K.69, D.70, Y.71, L.72, R.73, E.120 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.67, A:K.69, A:D.70, A:L.72, A:R.73 Water bridges: A:E.120 EDO.6: 5 residues within 4Å: Chain A: D.6, T.7, E.10, F.119, L.122 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.7, A:E.10, A:E.10 EDO.7: 6 residues within 4Å: Chain A: K.59, K.64, Y.65, D.70, R.73, D.74 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.64, A:D.70 Water bridges: A:K.59 EDO.8: 4 residues within 4Å: Chain A: S.55, S.58, K.59, L.62 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.55

1 x PYZ: 4-IODOPYRAZOLE(Covalent)

PYZ.10: 6 residues within 4Å: Chain A: I.13, F.14, N.17, V.18, R.21, E.114 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.21

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

2023-03-01

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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