SMTL ID : 2xbk.1

X-ray structure of the substrate-bound cytochrome P450 PimD - a polyene macrolide antibiotic pimaricin epoxidase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

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

HEM.1: 28 residues within 4Å: Chain A: R.72, H.105, R.109, L.112, F.116, L.161, L.238, A.241, G.242, S.245, V.246, I.249, L.282, L.292, P.293, R.295, L.318, T.345, F.346, G.347, I.350, W.351, H.352, C.353, I.354, G.355, A.359 Ligands: XBK.2 21 PLIP interactions: 21 interactions with chain A, Hydrophobic interactions: A:L.112, A:F.116, A:L.161, A:A.241, A:I.249, A:L.282, A:L.292, A:L.318, A:T.345, A:F.346, A:F.346, A:I.354, A:I.354, A:A.359 Hydrogen bonds: A:W.351 Salt bridges: A:R.72, A:H.105, A:R.109, A:R.295 pi-Stacking: A:F.346 Metal complexes: A:C.353

1 x XBK: 4,5-DE-EPOXYPIMARICIN(Non-covalent)

XBK.2: 22 residues within 4Å: Chain A: L.20, R.72, F.88, L.92, L.185, G.237, F.240, S.245, S.248, I.249, R.286, G.289, S.290, V.291, L.292, P.293, Q.392, L.393, S.394, G.395, G.396 Ligands: HEM.1 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:F.88, A:L.185, A:F.240, A:L.292, A:P.293, A:L.393 Hydrogen bonds: A:R.72, A:S.248, A:S.248, A:S.394, A:S.394, A:G.395, A:G.396 Water bridges: A:L.20, A:S.245, A:S.245, A:S.245, A:G.289, A:S.290, A:S.394

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kells, P.M. et al., Structure of Cytochrome P450 Pimd Suggests Epoxidation of the Polyene Macrolide Pimaricin Occurs Via a Hydroperoxoferric Intermediate. Chem.Biol. (2010)

Release Date

2010-08-04

Peptides

PIMD PROTEIN: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

PIMD PROTEIN

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