SMTL ID : 3a4z.3 (4 other biounits)

Structure of cytochrome P450 Vdh mutant (Vdh-K1) obtained by directed evolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

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

HEM.1: 26 residues within 4Å: Chain A: F.58, K.65, M.87, I.88, H.95, R.99, F.106, L.232, L.233, A.236, T.240, T.241, V.283, A.286, P.287, R.289, L.312, F.339, F.340, G.341, I.344, H.345, C.347, L.348, G.349, A.353 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:I.88, A:F.106, A:L.232, A:A.236, A:V.283, A:L.312, A:L.348, A:L.348, A:A.353 Hydrogen bonds: A:P.287 Water bridges: A:H.345 Salt bridges: A:K.65, A:H.95, A:R.99, A:R.289, A:H.345 pi-Stacking: A:F.340 Metal complexes: A:C.347

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 2 residues within 4Å: Chain A: D.204 Ligands: ACT.3 5 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:D.204, H2O.1, H2O.1, H2O.1, ACT.3

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 2 residues within 4Å: Chain A: D.204 Ligands: CA.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.204 ACT.4: 3 residues within 4Å: Chain A: H.342, G.343, F.346 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.346 Hydrogen bonds: A:G.343 Salt bridges: A:H.342

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yasutake, Y. et al., Structural evidence for enhancement of sequential vitamin D3 hydroxylation activities by directed evolution of cytochrome P450 vitamin D3 hydroxylase. J.Biol.Chem. (2010)

Release Date

2010-07-28

Peptides

Vitamin D hydroxylase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Vitamin D hydroxylase

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