SMTL ID : 6h1t.1 (3 other biounits)

Structure of the BM3 heme domain in complex with clotrimazole

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.08 Å

Oligo State

monomer

Ligands

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

HEM.1: 25 residues within 4Å: Chain A: K.69, L.75, L.86, V.87, W.96, F.107, F.261, A.264, G.265, T.268, T.269, T.327, A.328, F.331, P.392, F.393, G.394, R.398, A.399, C.400, I.401, G.402, F.405, A.406 Ligands: CL6.2 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:L.86, A:V.87, A:F.107, A:F.261, A:F.261, A:A.328, A:F.393, A:I.401, A:F.405 Hydrogen bonds: A:R.398 Water bridges: A:K.69, A:K.69, A:S.332, A:S.332, A:S.332 Salt bridges: A:K.69, A:R.398 Metal complexes: A:C.400

1 x CL6: 1-[(2-CHLOROPHENYL)(DIPHENYL)METHYL]-1H-IMIDAZOLE(Non-covalent)

CL6.2: 13 residues within 4Å: Chain A: L.75, F.82, V.87, T.260, A.264, T.268, A.328, A.330, L.437, T.438 Ligands: HEM.1, MPD.3, MPD.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.75, A:V.87, A:A.264, A:T.268, A:A.328, A:L.437 pi-Stacking: A:F.82

4 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.3: 8 residues within 4Å: Chain A: S.72, L.75, P.329, A.330, M.354, L.437 Ligands: CL6.2, EDO.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.72 Water bridges: A:S.332 MPD.4: 5 residues within 4Å: Chain A: M.177, V.178, L.181, I.263 Ligands: CL6.2 No protein-ligand interaction detected (PLIP) MPD.5: 7 residues within 4Å: Chain A: F.81, I.209, M.212, N.213, R.255, I.259 Ligands: EDO.8 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:F.81, A:I.209 MPD.6: 4 residues within 4Å: Chain A: R.79, G.83, D.84, Y.256 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.256

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

EDO.7: 3 residues within 4Å: Chain A: D.199, E.200, R.203 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.203 EDO.8: 3 residues within 4Å: Chain A: D.80, F.205 Ligands: MPD.5 No protein-ligand interaction detected (PLIP) EDO.9: 6 residues within 4Å: Chain A: W.130, E.131, L.133, A.448, K.449, S.450 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.130, A:S.450 Water bridges: A:K.452 EDO.10: 2 residues within 4Å: Chain A: Y.51 Ligands: MPD.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.51, A:Y.51

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jeffreys, L.N. et al., Novel insights into P450 BM3 interactions with FDA-approved antifungal azole drugs. Sci Rep (2019)

Release Date

2019-02-20

Peptides

Bifunctional cytochrome P450/NADPH--P450 reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bifunctional cytochrome P450/NADPH--P450 reductase

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