SMTL ID : 2w23.1

Structure of mutant W169Y of Pleurotus eryngii versatile peroxidase (VP)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

monomer

Ligands

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

HEM.1: 24 residues within 4Å: Chain A: E.36, H.39, E.40, L.42, R.43, T.45, F.46, P.139, E.140, P.141, L.165, L.166, S.168, H.169, I.171, A.172, A.173, A.174, D.175, K.176, V.177, F.186, L.228, S.230 27 PLIP interactions: 26 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:L.42, A:L.42, A:R.43, A:F.46, A:F.46, A:F.46, A:F.46, A:P.139, A:P.141, A:L.165, A:L.166, A:A.172, A:A.174, A:V.177, A:F.186, A:F.186, A:L.228 Hydrogen bonds: A:H.39, A:A.173, A:D.175, A:K.176, A:V.177 Water bridges: A:R.43 Salt bridges: A:R.43 pi-Stacking: A:F.186 Metal complexes: A:H.169, H2O.3

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: D.48, G.60, D.62, S.64 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.48, A:D.62, A:S.64, H2O.3, H2O.4 CA.3: 5 residues within 4Å: Chain A: S.170, D.187, T.189, V.192, D.194 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.187, A:D.187, A:T.189, A:V.192, A:D.194

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.4: 3 residues within 4Å: Chain A: H.136, E.140, F.142 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.140 Water bridges: A:A.77, A:E.140 Salt bridges: A:H.136

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: P.115, V.192, L.288, V.289, G.290 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.289, A:G.290, A:G.290

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ruiz-Duenas, F.J. et al., Protein Radicals in Fungal Versatile Peroxidase: Catalytic Tryptophan Radical in Both Compound I and Compound II and Studies on W164Y, W164H, and W164S Variants. J.Biol.Chem. (2009)

Release Date

2009-01-20

Peptides

VERSATILE PEROXIDASE VPL2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

VERSATILE PEROXIDASE VPL2