SMTL ID : 5r4v.1

XChem fragment screen -- CRYSTAL STRUCTURE OF THE BROMODOMAIN OF THE HUMAN ATAD2 in complex with N13475a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.29 Å

Oligo State

monomer

Ligands

2 x JMM: [4-(cyclopropanecarbonyl)piperazin-1-yl](furan-2-yl)methanone(Non-covalent)

JMM.1: 8 residues within 4Å: Chain A: V.30, F.31, E.39, V.40, Y.43, Y.85, N.86, I.96 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.30, A:F.31, A:V.40, A:I.96 Hydrogen bonds: A:N.86 JMM.2: 7 residues within 4Å: Chain A: K.69, L.72, Y.108, I.111, L.115, E.117, E.120 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.108, A:Y.108, A:I.111, A:L.115

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

SO4.3: 2 residues within 4Å: Chain A: R.89, R.94 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.89, A:R.94 SO4.4: 2 residues within 4Å: Chain A: K.59, K.64 7 PLIP interactions: 7 interactions with chain A Water bridges: A:E.49, A:K.59, A:K.59, A:K.59, A:K.59 Salt bridges: A:K.59, A:K.64

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

EDO.5: 5 residues within 4Å: Chain A: E.10, E.114, L.115, D.116, F.119 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.10, A:E.114, A:D.116 EDO.6: 4 residues within 4Å: Chain A: E.113, E.114, L.115, D.116 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.116 EDO.7: 4 residues within 4Å: Chain A: S.55, S.58, K.59, L.62 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Talon, R. et al., XChem fragment screen. To Be Published

Release Date

2020-05-13

Peptides

ATPase family AAA domain-containing protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ATPase family AAA domain-containing protein 2

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