SMTL ID : 7wde.1

Crystal structure of the P450 BM3 heme domain mutant F87L in complex with N-imidazolyl-hexanoyl-L-phenylalanine, styrene and hydroxylamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.11 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, F.263, A.266, G.267, T.270, T.271, L.324, 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.3 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:L.88, A:F.263, A:F.263, A:A.266, A:L.324, A:F.395, A:I.403, A:F.407 Hydrogen bonds: A:R.400 Water bridges: A:K.71, A:S.334, A:S.334, A:S.334 Salt bridges: A:K.71, A:R.400 Metal complexes: A:C.402 HEM.10: 26 residues within 4Å: Chain B: K.71, L.77, L.88, L.89, W.98, F.263, A.266, G.267, T.270, T.271, L.324, 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: IC6.11, HOA.12 19 PLIP interactions: 19 interactions with chain B, Hydrophobic interactions: B:L.88, B:F.263, B:F.263, B:A.266, B:L.324, B:A.330, 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 Salt bridges: B:K.71, B:K.71, B:R.400 Metal complexes: B:C.402

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

IC6.2: 16 residues within 4Å: Chain A: P.27, V.28, L.31, Y.53, A.76, L.77, M.187, L.190, T.270, A.330, A.332, M.356, L.439 Ligands: HEM.1, HOA.3, IC6.4 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.77, A:L.190 Hydrogen bonds: A:Y.53 IC6.4: 12 residues within 4Å: Chain A: L.22, F.44, R.49, Y.53, S.74, Q.75, A.76, L.190, 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:L.190, A:A.332 Hydrogen bonds: A:Y.53, A:Q.75, A:A.76 Salt bridges: A:R.49 pi-Cation interactions: A:R.49 IC6.11: 15 residues within 4Å: Chain B: P.27, V.28, L.31, Y.53, A.76, L.89, L.190, T.270, A.330, A.332, M.356, L.439 Ligands: HEM.10, HOA.12, IC6.13 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:P.27, B:P.27, B:V.28, B:A.76, B:L.190 Water bridges: B:S.74 IC6.13: 11 residues within 4Å: Chain B: L.22, R.49, Y.53, S.74, Q.75, A.76, L.190, A.330, A.332, M.356 Ligands: IC6.11 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.22, B:A.332 Hydrogen bonds: B:Q.75, B:A.76 Salt bridges: B:R.49 pi-Cation interactions: B:R.49

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:T.270 HOA.12: 4 residues within 4Å: Chain B: A.266, T.270 Ligands: HEM.10, IC6.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.270, B:T.270

4 x SYN: ethenylbenzene(Non-covalent)

SYN.5: 7 residues within 4Å: Chain A: E.145, T.148, R.149, S.166, R.169, D.170, P.172 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.148, A:R.149, A:R.169 SYN.6: 3 residues within 4Å: Chain A: R.377, R.380, A.386 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:R.380 SYN.7: 4 residues within 4Å: Chain A: T.93, W.98, K.99, Q.399 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.93, A:W.98, A:K.99 SYN.9: 3 residues within 4Å: Chain A: K.26, Q.29, A.30 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.26, A:Q.29

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 4 residues within 4Å: Chain A: F.281, N.285, E.375, F.376 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.285, A:E.375, A:E.375, A:F.376

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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