SMTL ID : 7egn.1

Crystal structure of the P450 BM3 heme domain mutant F87A in complex with N-imidazolyl-hexanoyl-L-phenylalanine and hydroxylamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 27 residues within 4Å: Chain A: K.71, L.88, A.89, W.98, I.155, F.263, A.266, G.267, T.270, T.271, L.274, L.324, T.329, A.330, F.333, P.394, F.395, G.396, Q.399, R.400, A.401, C.402, I.403, G.404, A.408 Ligands: IC6.2, HOA.3 17 PLIP interactions: 17 interactions with chain A, Hydrophobic interactions: A:L.88, A:A.89, A:I.155, A:F.263, A:A.266, A:L.274, A:L.324, A:F.395, A:I.403 Hydrogen bonds: A:A.401 Water bridges: A:K.71, A:K.71, A:S.334 Salt bridges: A:K.71, A:K.71, A:R.400 Metal complexes: A:C.402 HEM.4: 25 residues within 4Å: Chain B: K.71, L.88, A.89, W.98, I.155, F.263, A.266, G.267, T.270, T.271, T.329, A.330, F.333, P.394, F.395, G.396, Q.399, R.400, A.401, C.402, I.403, G.404, A.408 Ligands: IC6.5, HOA.6 17 PLIP interactions: 17 interactions with chain B, Hydrophobic interactions: B:L.88, B:A.89, B:I.155, B:F.263, B:F.263, B:A.330, B:F.395, B:I.403 Hydrogen bonds: B:A.401 Water bridges: B:K.71, B:K.71, B:S.334, B:S.334 Salt bridges: B:K.71, B:K.71, B:R.400 Metal complexes: B:C.402

2 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, L.31, Y.53, S.74, A.76, M.187, A.330, P.331, A.332, M.356, L.439 Ligands: HEM.1, HOA.3 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.27, A:P.27, A:V.28, A:L.31, A:L.439 Hydrogen bonds: A:Y.53, A:Y.53, A:A.76 Salt bridges: A:R.49 IC6.5: 13 residues within 4Å: Chain B: L.22, P.27, V.28, Y.53, S.74, M.187, L.190, A.332, M.356, T.438, L.439 Ligands: HEM.4, HOA.6 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:P.27, B:V.28, B:L.190 Hydrogen bonds: B:Y.53

2 x HOA: HYDROXYAMINE(Non-covalent)

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

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 2 residues within 4Å: Chain B: R.192, Y.200 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.200, B:Y.200

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, X. et al., H-Bonding Networks Dictate the Molecular Mechanism of H2O2 Activation by P450. Acs Catalysis (2021)

Release Date

2021-08-18

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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