SMTL ID : 7k88.1

Crystal structure of bovine RPE65 in complex with hexaethylene glycol monooctyl ether

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x FE2: FE (II) ION(Non-covalent)

FE2.1: 5 residues within 4Å: Chain A: H.180, H.241, H.313, H.527 Ligands: 32M.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.180, A:H.241, A:H.313, A:H.527, H2O.1 FE2.3: 5 residues within 4Å: Chain B: H.180, H.241, H.313, H.527 Ligands: 32M.4 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.180, B:H.241, B:H.313, B:H.527, H2O.16

2 x 32M: 3,6,9,12,15,18-hexaoxahexacosan-1-ol(Non-covalent)

32M.2: 23 residues within 4Å: Chain A: L.60, F.61, F.103, V.134, T.147, E.148, T.149, Y.239, H.241, Y.275, H.313, Y.338, L.341, F.418, L.437, L.439, F.442, P.444, V.524, T.525, F.526, H.527 Ligands: FE2.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.341, A:L.437, A:L.439, A:V.524 Hydrogen bonds: A:Y.338 Water bridges: A:F.103 32M.4: 22 residues within 4Å: Chain B: L.60, F.61, F.103, V.134, T.147, E.148, T.149, Y.239, H.241, Y.275, H.313, Y.338, L.341, F.418, L.437, L.439, F.442, P.444, V.524, T.525, H.527 Ligands: FE2.3 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:L.60, B:F.418, B:F.418, B:L.437, B:L.439, B:L.439, B:P.444, B:V.524 Hydrogen bonds: B:Y.338

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.5: 8 residues within 4Å: Chain B: Q.4, V.5, V.459, W.460, Q.461, E.462, P.463 Ligands: NA.6 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.461

1 x NA: SODIUM ION(Non-functional Binders)

NA.6: 2 residues within 4Å: Chain B: Q.461 Ligands: PG4.5 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.461

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Blum, E. et al., Rational Alteration of Pharmacokinetics of Chiral Fluorinated and Deuterated Derivatives of Emixustat for Retinal Therapy. J.Med.Chem. (2021)

Release Date

2021-06-02

Peptides

Retinoid isomerohydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Retinoid isomerohydrolase

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