SMTL ID : 5eq0.1

Crystal Structure of chromodomain of CBX8 in complex with inhibitor UNC3866

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.18 Å

Oligo State

monomer

Ligands

1 x 5R0- PHE- ALA- LEU- ELY- 5R5: unc3866(Non-covalent)

5R0-PHE-ALA-LEU-ELY-5R5.1: 17 residues within 4Å: Chain A: E.2, R.3, V.4, F.5, A.6, A.7, W.26, W.29, Y.33, T.35, E.37, N.41, L.43, D.44, R.46, L.47 Ligands: UNX.13 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:D.44, A:L.47, A:L.47, A:F.5, A:F.5, A:W.26, A:W.26, A:W.29 Hydrogen bonds: A:A.7, A:E.37, A:N.41, A:R.3, A:R.3 Water bridges: A:E.2, A:N.41 pi-Cation interactions: A:W.26

12 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.2: 2 residues within 4Å: Chain A: S.30, Q.31 No protein-ligand interaction detected (PLIP) UNX.3: 4 residues within 4Å: Chain A: R.16, R.19, E.21 Ligands: UNX.7 No protein-ligand interaction detected (PLIP) UNX.4: 1 residues within 4Å: Chain A: R.14 No protein-ligand interaction detected (PLIP) UNX.5: 4 residues within 4Å: Chain A: L.11, K.12, F.51 Ligands: UNX.6 No protein-ligand interaction detected (PLIP) UNX.6: 3 residues within 4Å: Chain A: F.51, E.55 Ligands: UNX.5 No protein-ligand interaction detected (PLIP) UNX.7: 7 residues within 4Å: Chain A: R.19, M.20, E.21, P.38, E.39 Ligands: UNX.3, UNX.9 No protein-ligand interaction detected (PLIP) UNX.8: 3 residues within 4Å: Chain A: A.50, E.53, R.54 No protein-ligand interaction detected (PLIP) UNX.9: 4 residues within 4Å: Chain A: P.38, E.39, E.40 Ligands: UNX.7 No protein-ligand interaction detected (PLIP) UNX.10: 1 residues within 4Å: Chain A: K.17 No protein-ligand interaction detected (PLIP) UNX.11: 1 residues within 4Å: Chain A: R.46 No protein-ligand interaction detected (PLIP) UNX.12: 3 residues within 4Å: Chain A: L.23, Q.31, S.34 No protein-ligand interaction detected (PLIP) UNX.13: 2 residues within 4Å: Chain A: F.5 Ligands: 5R0-PHE-ALA-LEU-ELY-5R5.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stuckey, J.I. et al., A cellular chemical probe targeting the chromodomains of Polycomb repressive complex 1. Nat.Chem.Biol. (2016)

Release Date

2015-12-23

Peptides

Chromobox protein homolog 8: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Chromobox protein homolog 8