SMTL ID : 5dqn.1

Polyethylene 600-bound form of P450 CYP125A3 mutant from Myobacterium Smegmatis - W83Y

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.26 Å

Oligo State

monomer

Ligands

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

HEM.1: 28 residues within 4Å: Chain A: L.99, L.100, H.107, R.111, F.118, M.247, L.248, A.251, G.252, T.255, T.256, S.259, P.295, R.301, Y.324, G.351, F.352, G.353, G.354, A.357, H.358, Y.359, C.360, I.361, G.362, L.365, A.366 Ligands: 1PE.5 21 PLIP interactions: 21 interactions with chain A, Hydrophobic interactions: A:L.99, A:F.118, A:L.248, A:A.251, A:P.295, A:Y.324, A:F.352, A:I.361, A:L.365 Hydrogen bonds: A:Y.324, A:G.354, A:G.354 Water bridges: A:R.301, A:H.358, A:Y.359 Salt bridges: A:H.107, A:R.111, A:R.301, A:H.358 pi-Stacking: A:F.352 Metal complexes: A:C.360

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 7 residues within 4Å: Chain A: V.82, P.84, G.186, E.187, S.395, G.396, W.397 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.186, A:S.395, A:G.396, A:W.397 PO4.3: 2 residues within 4Å: Chain A: C.155, N.181 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.181

1 x CIT: CITRIC ACID(Non-functional Binders)

CIT.4: 4 residues within 4Å: Chain A: D.93, L.94, R.96, A.97 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.94 Salt bridges: A:R.96

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.5: 10 residues within 4Å: Chain A: I.80, Q.95, V.98, L.100, M.247, V.250, A.251, T.255, F.299 Ligands: HEM.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Frank, D.J. et al., Cytochrome P450 125A4, the Third Cholesterol C-26 Hydroxylase from Mycobacterium smegmatis. Biochemistry (2015)

Release Date

2015-11-18

Peptides

Cytochrome P450 CYP125: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome P450 CYP125