SMTL ID : 6y2y.1

The crystal structure of engineered cytochrome c peroxidase from Saccharomyces cerevisiae with Trp51 to S-Trp51 and Trp191Phe modifications

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

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

HEM.1: 22 residues within 4Å: Chain A: P.71, V.72, R.75, W.78, P.172, D.173, A.174, F.185, L.198, M.199, A.201, H.202, L.204, G.205, K.206, T.207, H.208, N.211, S.212, F.218, L.259, T.261 19 PLIP interactions: 18 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:R.75, A:P.172, A:A.174, A:F.185, A:L.198, A:A.201, A:L.204, A:T.207, A:F.218 Hydrogen bonds: A:K.206, A:H.208, A:N.211 Water bridges: A:R.75, A:R.75 Salt bridges: A:R.75, A:H.208, A:H.208 Metal complexes: A:H.202, H2O.7

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 3 residues within 4Å: Chain A: K.150, S.290, I.312 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.290 Water bridges: A:K.150 EDO.3: 4 residues within 4Å: Chain A: L.240, E.248, W.250, P.260 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.267 EDO.4: 8 residues within 4Å: Chain A: L.57, I.67, G.68, Y.69, G.70, P.71, M.146, N.223 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.70 Water bridges: A:N.223 EDO.5: 0 residues within 4Å: (No contacts) 2 PLIP interactions: 2 interactions with chain A Water bridges: A:E.248, A:E.248

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ortmayer, M. et al., A Noncanonical Tryptophan Analogue Reveals an Active Site Hydrogen Bond Controlling Ferryl Reactivity in a Heme Peroxidase. Jacs Au (2021)

Release Date

2021-06-16

Peptides

Cytochrome c peroxidase, mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome c peroxidase, mitochondrial