SMTL ID : 7xbo.1 (1 other biounit)

Crystal Structure of 10-dml-bound cytochrome P450 PikC with the unnatural amino acid p-Acetyl-L-Phenylalanine incorporated at position 238

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

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

HEM.1: 27 residues within 4Å: Chain A: K.92, M.112, L.113, H.120, R.124, F.131, L.260, A.263, G.264, T.267, T.268, L.271, P.309, V.310, A.313, T.314, R.316, A.366, F.367, G.368, I.371, H.372, C.374, I.375, G.376, A.380 Ligands: E4H.2 17 PLIP interactions: 17 interactions with chain A, Hydrophobic interactions: A:L.113, A:F.131, A:L.260, A:L.271, A:P.309, A:F.367, A:I.375, A:A.380 Hydrogen bonds: A:T.314 Water bridges: A:H.372 Salt bridges: A:K.92, A:H.120, A:R.124, A:R.316, A:H.372 pi-Stacking: A:F.367 Metal complexes: A:C.374

1 x E4H: (3R,4S,5S,7R,9E,11R,12R)-12-ETHYL-4-HYDROXY-3,5,7,11-TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE(Non-covalent)

E4H.2: 13 residues within 4Å: Chain A: L.113, F.198, V.199, X.258, V.262, A.263, E.266, T.267, V.310, T.314, N.412, I.415 Ligands: HEM.1 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:L.113, A:F.198, A:V.199, A:V.262, A:A.263, A:T.267, A:V.310, A:I.415, A:I.415 Water bridges: A:E.266

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 4 residues within 4Å: Chain A: L.126, R.129, T.240, R.247 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.125, A:R.129, A:R.129, A:T.240, A:R.247, A:R.247 GOL.5: 2 residues within 4Å: Chain A: E.243, D.244 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.244 Water bridges: A:E.243 GOL.6: 9 residues within 4Å: Chain A: L.85, P.88, F.90, K.92, S.115, D.116, P.117, I.371, H.372 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.85, A:K.92, A:S.115 Water bridges: A:D.87, A:H.372 GOL.7: 7 residues within 4Å: Chain A: W.94, E.105, L.108, N.109, E.114, M.211, X.258 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.94, A:E.105, A:L.108, A:N.109, A:N.111 GOL.8: 3 residues within 4Å: Chain A: R.80, D.323, D.325 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.80, A:R.80, A:D.323, A:D.325, A:D.325

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 3 residues within 4Å: Chain A: P.118, R.119, R.122 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:P.118, A:R.119, A:R.122 Water bridges: A:H.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pan, Y.J. et al., New mechanistic insight of cytochrome P450 PikC gained from site-specific mutagenesis by non-coding amino acids. Nat Commun (2023)

Release Date

2023-02-15

Peptides

Cytochrome P450 monooxygenase PikC: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome P450 monooxygenase PikC

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