SMTL ID : 6v2r.1

Crystal Structure of chromodomain of CBX7 mutant V13A in complex with inhibitor UNC3866

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x 5R0- PHE- ALA- LEU- ELY- 5R5: UNC3866(Non-covalent)

5R0-PHE-ALA-LEU-ELY-5R5.1: 13 residues within 4Å: Chain A: Q.3, V.4, F.5, A.6, A.7, W.26, W.29, E.37, H.41, L.43, D.44, R.46, L.47 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:V.4, A:V.4, A:F.5, A:F.5, A:W.26, A:W.26, A:W.26, A:W.29, A:H.41, A:D.44, A:L.47 Hydrogen bonds: A:Q.3, A:F.5, A:F.5, A:A.7, A:E.37, A:H.41, A:L.43, A:D.44 Water bridges: A:W.36, A:E.37 pi-Cation interactions: A:F.5

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

UNX.2: 4 residues within 4Å: Chain A: E.8, K.25, K.27, G.28 Ligand excluded by PLIP UNX.3: 3 residues within 4Å: Chain A: F.5, A.6 Ligands: UNX.4 Ligand excluded by PLIP UNX.4: 4 residues within 4Å: Chain A: V.4, F.5 Ligands: UNX.3, UNX.9 Ligand excluded by PLIP UNX.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UNX.6: 5 residues within 4Å: Chain A: I.42, P.45, V.48 Ligands: UNX.7, UNX.10 Ligand excluded by PLIP UNX.7: 4 residues within 4Å: Chain A: E.39, I.42, V.48 Ligands: UNX.6 Ligand excluded by PLIP UNX.8: 1 residues within 4Å: Chain A: G.18 Ligand excluded by PLIP UNX.9: 2 residues within 4Å: Chain A: V.4 Ligands: UNX.4 Ligand excluded by PLIP UNX.10: 5 residues within 4Å: Chain A: I.42, L.43, D.44, P.45 Ligands: UNX.6 Ligand excluded by PLIP UNX.11: 5 residues within 4Å: Chain A: K.19, V.20, P.38, E.39, E.40 Ligand excluded by PLIP UNX.12: 3 residues within 4Å: Chain A: K.19, V.20, E.39 Ligand excluded by PLIP UNX.13: 2 residues within 4Å: Chain A: Y.51, E.56 Ligand excluded by PLIP UNX.14: 3 residues within 4Å: Chain A: R.14, W.36 Ligands: UNX.15 Ligand excluded by PLIP UNX.15: 3 residues within 4Å: Chain A: T.35, W.36 Ligands: UNX.14 Ligand excluded by PLIP UNX.16: 3 residues within 4Å: Chain A: M.49, E.52, E.53 Ligand excluded by PLIP UNX.17: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP UNX.18: 1 residues within 4Å: Chain A: E.53 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dong, C. et al., Structural Basis for the Binding Selectivity of Human CDY Chromodomains. Cell Chem Biol (2020)

Release Date

2019-12-25

Peptides

Chromobox protein homolog 7: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Chromobox protein homolog 7