SMTL ID : 8gd2.1

Crystal structure of human cellular retinol binding protein 1 in complex with N-methyl-1-{3-[1-(4-methylphenyl)cyclopentyl]-1,2,4-oxadiazol-5-yl}-N-(2-thienylmethyl)methanamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.13 Å

Oligo State

monomer

Ligands

1 x Z5H: N-methyl-1-{3-[1-(4-methylphenyl)cyclopentyl]-1,2,4-oxadiazol-5-yl}-N-[(thiophen-2-yl)methyl]methanamine(Non-covalent)

Z5H.1: 23 residues within 4Å: Chain A: F.17, Y.20, L.21, V.26, L.30, A.34, L.37, P.39, K.41, I.52, T.54, S.56, F.58, R.59, N.60, Y.61, M.63, L.75, G.77, I.78, W.107, L.118, M.120 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.26, A:L.30, A:A.34, A:P.39, A:T.54, A:F.58, A:Y.61, A:Y.61, A:I.78 Water bridges: A:Q.129 pi-Cation interactions: A:K.41

1 x BTB: 2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-covalent)

BTB.2: 5 residues within 4Å: Chain A: T.108, W.110, E.119, R.121, V.126 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.121 Water bridges: A:E.119, A:E.119 Salt bridges: A:E.119

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Plau, J. et al., Discovery of Nonretinoid Inhibitors of CRBP1: Structural and Dynamic Insights for Ligand-Binding Mechanisms. Acs Chem.Biol. (2023)

Release Date

2023-10-04

Peptides

Retinol-binding protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Retinol-binding protein 1

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