SMTL ID : 6v2d.2 (5 other biounits)

Crystal Structure of chromodomain of CDYL2 in complex with inhibitor UNC3866

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

monomer

Ligands

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

5R0-PHE-ALA-LEU-ELY-5R5.1: 18 residues within 4Å: Chain A: G.4, D.5, L.6, Y.7, E.8, V.9, W.29, Y.32, T.38, E.40, H.44, L.45, L.46, H.47, C.48, E.50, F.51 Ligands: UNX.4 22 PLIP interactions: 22 interactions with chain A Hydrophobic interactions: A:L.6, A:Y.7, A:Y.7, A:E.8, A:V.9, A:W.29, A:W.29, A:W.29, A:Y.32, A:H.44, A:L.45, A:E.50, A:F.51 Hydrogen bonds: A:D.5, A:Y.7, A:Y.7, A:V.9, A:E.40, A:H.44, A:H.44, A:L.46, A:L.46

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

UNX.2: 2 residues within 4Å: Chain A: D.53, N.56 No protein-ligand interaction detected (PLIP) UNX.3: 2 residues within 4Å: Chain A: T.38, W.39 No protein-ligand interaction detected (PLIP) UNX.4: 3 residues within 4Å: Chain A: E.36, T.38 Ligands: 5R0-PHE-ALA-LEU-ELY-5R5.1 No protein-ligand interaction detected (PLIP) UNX.5: 4 residues within 4Å: Chain A: K.22, E.42, H.43 Ligands: UNX.6 No protein-ligand interaction detected (PLIP) UNX.6: 3 residues within 4Å: Chain A: N.18, K.22 Ligands: UNX.5 No protein-ligand interaction detected (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

Chromodomain Y-like protein 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Chromodomain Y-like protein 2

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