SMTL ID : 4qsp.1 (1 other biounit)

Structure of the bromodomain of human ATPase family AAA domain-containing protein 2 (ATAD2) in complex with acetyl-lysine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x ALY: N(6)-ACETYLLYSINE(Non-covalent)

ALY.1: 7 residues within 4Å: Chain A: V.30, V.35, V.40, Y.43, Y.85, N.86, I.96 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.30, A:V.35, A:V.40, A:Y.85, A:I.96 Hydrogen bonds: A:N.86

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

SO4.2: 3 residues within 4Å: Chain A: R.9, R.12, R.16 7 PLIP interactions: 7 interactions with chain A Water bridges: A:R.9, A:R.16, A:R.16, A:R.16 Salt bridges: A:R.9, A:R.12, A:R.16 SO4.3: 1 residues within 4Å: Chain A: K.64 5 PLIP interactions: 5 interactions with chain A Water bridges: A:K.59, A:K.59, A:K.59 Salt bridges: A:K.59, A:K.64

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

EDO.4: 5 residues within 4Å: Chain A: E.10, E.114, L.115, D.116, F.119 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.10, A:E.10, A:E.114, A:D.116 EDO.5: 4 residues within 4Å: Chain A: E.113, E.114, L.115, D.116 5 PLIP interactions: 5 interactions with chain A Water bridges: A:E.113, A:E.114, A:L.115, A:L.115, A:E.117 EDO.6: 3 residues within 4Å: Chain A: S.58, K.59, L.62 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.55 EDO.7: 2 residues within 4Å: Chain A: D.105, Y.108 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.105, A:D.105 Water bridges: A:R.104 EDO.8: 6 residues within 4Å: Chain A: V.68, K.69, L.72, I.111, L.115, E.120 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.120, A:E.120 EDO.9: 1 residues within 4Å: Chain A: R.99 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.99, A:R.99 EDO.10: 1 residues within 4Å: Chain A: Q.3 No protein-ligand interaction detected (PLIP) EDO.11: 4 residues within 4Å: Chain A: F.8, H.63, L.66, R.130 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.63, A:R.130 Water bridges: A:R.130 EDO.12: 4 residues within 4Å: Chain A: V.30, K.33, P.34, V.35 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.30 Water bridges: A:K.33, A:P.34

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chaikuad, A. et al., Structure-based approaches towards identification of fragments for the low-druggability ATAD2 bromodomain. MedChemComm (2014)

Release Date

2014-07-23

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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