SMTL ID : 4wnu.4 (3 other biounits)

Human Cytochrome P450 2D6 Quinidine Complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.26 Å

Oligo State

monomer

Ligands

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 26 residues within 4Å: Chain A: R.79, V.97, F.98, W.106, R.110, I.164, L.280, A.283, G.284, T.287, T.288, T.291, I.347, V.352, H.354, L.377, P.413, F.414, S.415, R.419, C.421, L.422, G.423, L.426, A.427 Ligands: DMS.3 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:V.97, A:F.98, A:F.98, A:I.164, A:L.280, A:A.283, A:I.347, A:V.352, A:L.377, A:F.414, A:L.422, A:L.426, A:A.427 Hydrogen bonds: A:F.98, A:S.415, A:S.415 Water bridges: A:V.352 Salt bridges: A:R.79, A:R.79, A:R.110, A:H.354, A:R.419 Metal complexes: A:C.421

1 x QDN: Quinidine(Non-covalent)

QDN.2: 14 residues within 4Å: Chain A: F.98, A.187, G.190, L.191, E.194, Q.222, F.225, L.226, A.278, D.279, S.282, A.283 Ligands: DMS.3, GOL.5 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.98, A:F.98, A:F.225, A:A.283 Hydrogen bonds: A:E.194, A:Q.222, A:S.282 Salt bridges: A:E.194, A:D.279

1 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.3: 6 residues within 4Å: Chain A: F.98, A.283, T.287, V.352 Ligands: HEM.1, QDN.2 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 4 residues within 4Å: Chain A: C.169, H.236, D.248, E.251 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.236, A:D.248, A:E.251

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 8 residues within 4Å: Chain A: V.82, L.88, L.99, E.194, R.199, L.219, Q.222 Ligands: QDN.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.199, A:R.199, A:Q.222 GOL.6: 2 residues within 4Å: Chain A: V.56 Ligands: GOL.7 1 PLIP interactions: 1 interactions with chain A Water bridges: A:T.353 GOL.7: 6 residues within 4Å: Chain A: F.29, L.51, L.350, I.374, F.461 Ligands: GOL.6 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, A. et al., Contributions of Ionic Interactions and Protein Dynamics to Cytochrome P450 2D6 (CYP2D6) Substrate and Inhibitor Binding. J.Biol.Chem. (2015)

Release Date

2015-01-14

Peptides

Cytochrome P450 2D6: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Cytochrome P450 2D6

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