SMTL ID : 5jtd.1

Crystal structure of the Ru(bpy)2PhenA functionalized P450 BM3 L407C heme domain mutant in complex with DMSO.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 25 residues within 4Å: Chain A: K.69, L.75, L.86, F.87, W.96, F.107, I.153, F.261, A.264, T.268, T.269, L.272, T.327, A.328, F.331, P.392, F.393, G.394, R.398, A.399, C.400, I.401, G.402, A.406 Ligands: DMS.2 20 PLIP interactions: 20 interactions with chain A, Hydrophobic interactions: A:L.86, A:F.87, A:F.107, A:I.153, A:F.261, A:A.264, A:T.268, A:L.272, A:A.328, A:F.393, A:I.401 Water bridges: A:K.69, A:H.100, A:S.332, A:S.332, A:S.332, A:R.398 Salt bridges: A:K.69, A:R.398 Metal complexes: A:C.400 HEM.5: 23 residues within 4Å: Chain B: K.69, L.86, F.87, W.96, I.153, F.261, A.264, T.268, T.269, L.272, T.327, A.328, F.331, P.392, F.393, G.394, R.398, A.399, C.400, I.401, G.402, A.406 Ligands: DMS.6 21 PLIP interactions: 21 interactions with chain B, Hydrophobic interactions: B:L.86, B:F.87, B:F.87, B:I.153, B:F.261, B:A.264, B:T.268, B:L.272, B:F.393, B:F.393, B:I.401, B:A.406 Water bridges: B:K.69, B:K.69, B:S.332, B:S.332, B:S.332, B:R.398 Salt bridges: B:K.69, B:R.398 Metal complexes: B:C.400

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 4 residues within 4Å: Chain A: F.87, A.264, T.268 Ligands: HEM.1 1 PLIP interactions: 1 interactions with chain A pi-Cation interactions: A:F.87 DMS.4: 5 residues within 4Å: Chain A: W.130, L.133, N.134, A.448, S.450 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.450 DMS.6: 5 residues within 4Å: Chain B: F.87, A.264, T.268, A.328 Ligands: HEM.5 1 PLIP interactions: 1 interactions with chain B pi-Cation interactions: B:F.87 DMS.8: 8 residues within 4Å: Chain B: W.130, E.131, L.133, N.134, A.135, A.448, S.450, K.452 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.450 Water bridges: B:S.450

2 x RU8: bis(2,2'-bipyridine-kappa~2~N~1~,N~1'~)[2-iodo-N-(1,10-phenanthrolin-5-yl-kappa~2~N~1~,N~10~)acetamide]ruthenium(2+)(Covalent)

RU8.3: 10 residues within 4Å: Chain A: K.309, K.312, G.315, M.316, L.318, N.319, F.379, P.382, C.407 Chain B: E.64 5 PLIP interactions: 5 interactions with chain A, Hydrophobic interactions: A:K.312, A:K.312, A:P.382 Hydrogen bonds: A:N.319 Water bridges: A:Q.403 RU8.7: 12 residues within 4Å: Chain A: D.370, R.375, E.377 Chain B: K.309, K.312, G.315, M.316, L.318, N.319, F.379, P.382, C.407 7 PLIP interactions: 7 interactions with chain B, Hydrophobic interactions: B:K.312, B:K.312, B:K.312, B:P.382, B:P.382 Hydrogen bonds: B:N.319 Water bridges: B:Q.403

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Spradlin, J. et al., Insights into an efficient light-driven hybrid P450 BM3 enzyme from crystallographic, spectroscopic and biochemical studies. Biochim.Biophys.Acta (2016)

Release Date

2016-10-12

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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