SMTL ID : 4quu.1

Structure of the bromodomain of human ATPase family AAA domain-containing protein 2 (ATAD2) complexed with Histone H4-K(ac)5

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-mer

Ligands

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

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

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

EDO.2: 6 residues within 4Å: Chain A: E.10, F.14, 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.3: 2 residues within 4Å: Chain A: D.105, Y.108 2 PLIP interactions: 2 interactions with chain A Water bridges: A:R.104, A:R.104 EDO.4: 4 residues within 4Å: Chain A: K.26, R.29, R.99 Ligands: EDO.10 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.99 Water bridges: A:K.26, A:V.30 EDO.5: 5 residues within 4Å: Chain A: K.69, L.72, I.111, L.115, E.120 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.120 EDO.6: 4 residues within 4Å: Chain A: K.59, K.64, Y.65, D.70 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.59, A:K.59, A:D.70 EDO.7: 4 residues within 4Å: Chain A: S.55, S.58, K.59, L.62 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.55 Water bridges: A:S.55 EDO.8: 4 residues within 4Å: Chain A: E.113, E.114, L.115, D.116 3 PLIP interactions: 3 interactions with chain A Water bridges: A:E.113, A:L.115, A:D.116 EDO.9: 3 residues within 4Å: Chain A: E.117, D.118, Q.121 No protein-ligand interaction detected (PLIP) EDO.10: 2 residues within 4Å: Chain A: R.99 Ligands: EDO.4 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.99, A:R.99

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Morozumi, Y. et al., Atad2 is a generalist facilitator of chromatin dynamics in embryonic stem cells. J Mol Cell Biol (2016)

Release Date

2014-07-30

Peptides

ATPase family AAA domain-containing protein 2: A
Histone H4: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ATPase family AAA domain-containing protein 2

Histone H4

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