SMTL ID : 7wdi.1

Crystal structure of the P450 BM3 heme domain mutant F87K in complex with N-imidazolyl-hexanoyl-L-phenylalanine and hydroxylamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 28 residues within 4Å: Chain A: K.71, L.77, L.88, K.89, W.98, F.109, 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, F.407, A.408 Ligands: IC6.2, HOA.4 22 PLIP interactions: 22 interactions with chain A, Hydrophobic interactions: A:L.88, A:K.89, A:F.109, A:I.155, A:F.263, A:F.263, A:A.266, A:L.274, A:F.395, A:I.403, A:F.407 Hydrogen bonds: A:R.400 Water bridges: A:K.71, A:K.71, A:S.334, A:S.334, A:S.334 Salt bridges: A:K.71, A:K.71, A:R.400 pi-Cation interactions: A:K.89 Metal complexes: A:C.402 HEM.5: 28 residues within 4Å: Chain B: K.71, L.77, L.88, K.89, W.98, F.109, 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, F.407, A.408 Ligands: IC6.6, HOA.8 22 PLIP interactions: 22 interactions with chain B, Hydrophobic interactions: B:L.88, B:K.89, B:F.109, B:I.155, B:F.263, B:F.263, B:A.266, B:L.274, B:F.395, B:I.403, B:F.407 Hydrogen bonds: B:R.400 Water bridges: B:K.71, B:K.71, B:S.334, B:S.334, B:S.334, B:N.397 Salt bridges: B:K.71, B:R.400 pi-Cation interactions: B:K.89 Metal complexes: B:C.402

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

IC6.2: 14 residues within 4Å: Chain A: P.27, V.28, Y.53, A.76, K.89, M.187, L.190, A.330, A.332, M.356, L.439 Ligands: HEM.1, IC6.3, HOA.4 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.27, A:P.27, A:V.28, A:A.76, A:L.190 Hydrogen bonds: A:Y.53, A:K.89 Water bridges: A:S.74 pi-Cation interactions: A:K.89 IC6.3: 14 residues within 4Å: Chain A: L.22, F.44, R.49, Y.53, S.74, Q.75, A.76, K.89, L.190, A.330, A.332, M.356, L.439 Ligands: IC6.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.22, A:F.44, A:A.76 Hydrogen bonds: A:Y.53, A:Q.75, A:A.76, A:K.89 Salt bridges: A:R.49 pi-Cation interactions: A:R.49 IC6.6: 16 residues within 4Å: Chain B: P.27, V.28, L.31, Y.53, A.76, K.89, M.187, L.190, T.270, A.330, A.332, M.356, L.439 Ligands: HEM.5, IC6.7, HOA.8 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:P.27, B:P.27, B:V.28, B:A.76, B:L.190, B:L.439 Hydrogen bonds: B:K.89 Water bridges: B:S.74 pi-Cation interactions: B:K.89 IC6.7: 13 residues within 4Å: Chain B: L.22, F.44, R.49, Y.53, S.74, Q.75, A.76, K.89, L.190, A.330, A.332, M.356 Ligands: IC6.6 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:L.22, B:F.44, B:L.190, B:A.332 Hydrogen bonds: B:Q.75, B:A.76, B:K.89 Salt bridges: B:R.49 pi-Cation interactions: B:R.49

2 x HOA: HYDROXYAMINE(Non-covalent)

HOA.4: 5 residues within 4Å: Chain A: K.89, A.266, T.270 Ligands: HEM.1, IC6.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.89, A:K.89 Water bridges: A:A.266, A:T.270 HOA.8: 5 residues within 4Å: Chain B: K.89, A.266, T.270 Ligands: HEM.5, IC6.6 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.89, B:K.89, B:T.270

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jiang, Y. et al., Crystal structure of the P450 BM3 heme domain mutant F87A in complex with N-imidazolyl-hexanoyl-L-phenylalanine and hydroxylamine. To Be Published

Release Date

2022-12-28

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

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