SMTL ID : 7y0r.1

Crystal structure of the P450 BM3 heme domain mutant F87L/V78S/A184V in complex with N-imidazolyl-hexanoyl-L-phenylalanine, p-toluidine and hydroxylamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 26 residues within 4Å: Chain A: K.71, L.77, L.88, L.89, W.98, I.155, F.263, A.266, G.267, T.270, T.271, L.274, T.329, A.330, F.333, P.394, F.395, G.396, R.400, A.401, C.402, I.403, G.404, A.408 Ligands: HOA.2, IC6.3 21 PLIP interactions: 21 interactions with chain A, Hydrophobic interactions: A:L.88, A:L.89, A:I.155, A:F.263, A:F.263, A:A.266, A:L.274, A:F.395, A:I.403 Hydrogen bonds: A:R.400, A:R.400 Water bridges: A:K.71, A:H.102, A:S.334, A:S.334, A:S.334, A:R.400 Salt bridges: A:K.71, A:K.71, A:R.400 Metal complexes: A:C.402 HEM.6: 26 residues within 4Å: Chain B: K.71, L.77, L.88, L.89, W.98, I.155, F.263, A.266, G.267, T.270, T.271, L.274, T.329, A.330, F.333, P.394, F.395, G.396, R.400, A.401, C.402, I.403, G.404, A.408 Ligands: HOA.7, IC6.8 19 PLIP interactions: 19 interactions with chain B, Hydrophobic interactions: B:L.88, B:I.155, B:F.263, B:F.263, B:A.266, B:L.274, B:F.395, B:I.403 Hydrogen bonds: B:R.400, B:R.400 Water bridges: B:K.71, B:K.71, B:S.334, B:S.334, B:S.334 Salt bridges: B:K.71, B:K.71, B:R.400 Metal complexes: B:C.402

2 x HOA: HYDROXYAMINE(Non-covalent)

HOA.2: 5 residues within 4Å: Chain A: A.266, T.270 Ligands: HEM.1, IC6.3, IC6.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.266, A:A.266 Water bridges: A:T.270 HOA.7: 5 residues within 4Å: Chain B: A.266, T.270 Ligands: HEM.6, IC6.8, IC6.10 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.270, B:T.270 Water bridges: B:T.270

4 x IC6: (2S)-2-(6-imidazol-1-ylhexanoylamino)-3-phenyl-propanoic acid(Non-covalent)

IC6.3: 15 residues within 4Å: Chain A: P.27, V.28, L.31, Y.53, A.76, L.89, L.190, A.330, A.332, M.356, L.439 Ligands: HEM.1, HOA.2, 4MN.4, IC6.5 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:P.27, A:P.27, A:V.28, A:L.31, A:A.76, A:L.190 Hydrogen bonds: A:Y.53 Water bridges: A:S.74 IC6.5: 16 residues within 4Å: Chain A: L.22, F.44, A.46, R.49, Y.53, S.74, Q.75, A.76, L.89, A.330, A.332, M.356, L.439 Ligands: HOA.2, IC6.3, 4MN.4 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.22, A:F.44, A:A.46 Hydrogen bonds: A:Y.53, A:Q.75, A:A.76 Salt bridges: A:R.49 pi-Cation interactions: A:R.49 IC6.8: 16 residues within 4Å: Chain B: L.22, P.27, V.28, Y.53, L.89, M.187, L.190, T.270, A.330, A.332, M.356, L.439 Ligands: HEM.6, HOA.7, 4MN.9, IC6.10 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.22, B:P.27, B:P.27, B:V.28, B:L.190 Water bridges: B:S.74 IC6.10: 13 residues within 4Å: Chain B: L.22, R.49, Y.53, S.74, Q.75, A.76, L.190, A.330, A.332, L.439 Ligands: HOA.7, IC6.8, 4MN.9 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.22, B:A.76 Hydrogen bonds: B:Q.75, B:A.76 Salt bridges: B:R.49 pi-Cation interactions: B:R.49

2 x 4MN: 4-METHYLANILINE(Non-covalent)

4MN.4: 9 residues within 4Å: Chain A: S.80, L.89, L.183, I.265, A.266, E.269, T.440 Ligands: IC6.3, IC6.5 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.89, A:L.183, A:I.265 Hydrogen bonds: A:E.269 Water bridges: A:E.269 4MN.9: 9 residues within 4Å: Chain B: L.89, T.90, L.183, I.265, A.266, E.269, T.440 Ligands: IC6.8, IC6.10 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:L.89, B:T.90, B:L.183, B:I.265 Hydrogen bonds: B:E.269, B:E.269 Water bridges: B:T.440

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, Y. et al., Crystal structure of the P450 BM3 heme domain mutant F87L/V78S/A184V in complex with N-imidazolyl-hexanoyl-L-phenylalanine, p-toluidine and hydroxylamine. To Be Published

Release Date

2023-06-14

Peptides

Bifunctional cytochrome P450/NADPH--P450 reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bifunctional cytochrome P450/NADPH--P450 reductase