SMTL ID : 9ply.1

Crystal structure of the human DCAF1 WDR domain in complex with OICR-40156

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

2 x 01: (4P)-N-[(1S)-3-amino-1-(3-chloro-4-fluorophenyl)-3-oxopropyl]-4-(4-chloro-2-fluorophenyl)-5-{(1E)-3-[(3-methoxypropyl)amino]-3-oxoprop-1-en-1-yl}-1H-pyrrole-3-carboxamide

01.1: 19 residues within 4Å: Chain A: T.64, H.65, Y.106, R.150, R.223, V.224, V.225, Y.234, G.235, A.236, L.238, K.252, P.254, F.255, I.279, F.280, D.281, L.282 Ligands: UNX.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:R.223, A:V.225, A:L.238, A:P.254, A:F.255 Hydrogen bonds: A:R.223, A:D.281, A:L.282 Water bridges: A:C.24 pi-Stacking: A:F.255 Halogen bonds: A:R.150 01.4: 19 residues within 4Å: Chain B: T.64, H.65, Y.106, R.150, C.152, R.223, V.224, V.225, Y.234, G.235, A.236, L.238, K.252, P.254, F.255, I.279, F.280, D.281, L.282 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:R.223, B:R.223, B:V.225, B:L.238, B:P.254, B:F.255 Hydrogen bonds: B:R.150, B:R.223, B:D.281, B:L.282 pi-Stacking: B:F.255 Halogen bonds: B:R.150

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

EDO.2: 9 residues within 4Å: Chain A: N.151, C.152, L.163, N.164, D.165, G.166, V.167, S.188, G.189 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:C.152, A:G.166, A:V.167 EDO.5: 5 residues within 4Å: Chain B: H.192, P.193, N.194, T.229, G.230 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.230

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

UNX.3: 2 residues within 4Å: Chain A: R.150 Ligands: 01.1 No protein-ligand interaction detected (PLIP) UNX.6: 1 residues within 4Å: Chain B: R.150 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kimani, S. et al., Crystal structure of the human DCAF1 WDR domain in complex with OICR-40156. To be published

Release Date

2025-07-30

Peptides

DDB1- and CUL4-associated factor 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DDB1- and CUL4-associated factor 1

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