SMTL ID : 8yaz.1 (1 other biounit)

XFEL crystal structure of the oxidized form of F87A/F393H P450BM3 with N-enanthyl-L-prolyl-L-phenylalanine in complex with styrene

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

monomer

Ligands

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

HEM.1: 24 residues within 4Å: Chain A: K.69, L.75, L.86, A.87, W.96, I.153, F.261, A.264, T.268, T.269, L.272, T.327, A.328, F.331, P.392, H.393, G.394, R.398, A.399, C.400, I.401, G.402, A.406 Ligands: SYN.3 22 PLIP interactions: 21 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:L.86, A:A.87, A:I.153, A:F.261, A:A.264, A:L.272, A:A.328, A:I.401, A:A.406 Hydrogen bonds: A:R.398 Water bridges: A:K.69, A:K.69, A:H.100, A:H.100, A:S.332, A:S.332, A:S.332 Salt bridges: A:K.69, A:R.398 pi-Cation interactions: A:H.393 Metal complexes: A:C.400, H2O.5

1 x D0L: (2S)-2-[[(2S)-1-heptylpyrrolidin-2-yl]carbonylamino]-3-phenyl-propanoic acid(Covalent)

D0L.2: 19 residues within 4Å: Chain A: L.20, P.25, V.26, L.29, F.42, A.44, R.47, T.49, Y.51, S.72, Q.73, A.74, L.75, M.185, L.188, A.330, M.354, L.437 Ligands: SYN.3 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.20, A:P.25, A:V.26, A:L.29, A:F.42, A:A.44, A:T.49, A:A.74, A:L.75, A:L.437 Hydrogen bonds: A:Q.73, A:A.74 Salt bridges: A:R.47 pi-Cation interactions: A:R.47

1 x SYN: ethenylbenzene(Non-covalent)

SYN.3: 6 residues within 4Å: Chain A: V.78, A.87, I.263, A.264 Ligands: HEM.1, D0L.2 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.78, A:A.87, A:I.263, A:A.264

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 9 residues within 4Å: Chain A: W.130, E.131, L.133, N.134, A.135, F.421, A.448, K.449, S.450 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.448 Water bridges: A:A.448, A:S.450 GOL.5: 2 residues within 4Å: Chain A: D.121, R.161 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.121, A:R.161, A:R.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nagao, S. et al., XFEL Crystallography Reveals Dynamic Control of Non-Natural Substrate Binding in Cytochrome P450BM3 Catalytic Cycle. To Be Published

Release Date

2025-02-12

Peptides

Bifunctional cytochrome P450/NADPH--P450 reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bifunctional cytochrome P450/NADPH--P450 reductase

Related Entries With Identical Sequence