SMTL ID : 6h08.1 (2 other biounits)

The crystal structure of engineered cytochrome c peroxidase from Saccharomyces cerevisiae with a His175Me-His proximal ligand substitution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

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

HEM.1: 23 residues within 4Å: Chain A: P.47, V.48, V.50, R.51, W.54, P.148, D.149, A.150, F.161, L.174, A.177, H.178, L.180, G.181, K.182, T.183, H.184, N.187, S.188, W.194, L.235, T.237, F.269 28 PLIP interactions: 27 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:V.50, A:R.51, A:W.54, A:W.54, A:W.54, A:P.148, A:P.148, A:F.161, A:L.174, A:A.177, A:T.183, A:W.194, A:L.235, A:F.269 Hydrogen bonds: A:K.182, A:H.184, A:N.187, A:S.188 Water bridges: A:D.40, A:D.40, A:D.40, A:V.48, A:R.51 Salt bridges: A:R.51, A:H.184, A:H.184 pi-Stacking: A:W.54 Metal complexes: H2O.3

1 x CO: COBALT (II) ION(Non-covalent)

CO.2: 3 residues within 4Å: Chain A: H.3, H.5, H.63 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.3, A:H.5, A:H.63, H2O.5, H2O.8

1 x MN: MANGANESE (II) ION(Non-covalent)

MN.3: 2 residues within 4Å: Chain A: H.4, H.6 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.4, A:H.6, H2O.2, H2O.7

1 x NA: SODIUM ION(Non-functional Binders)

NA.4: 1 residues within 4Å: Chain A: D.37 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.37

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ortmayer, M. et al., Rewiring the "Push-Pull" Catalytic Machinery of a Heme Enzyme Using an Expanded Genetic Code. Acs Catalysis (2020)

Release Date

2020-02-12

Peptides

Cytochrome c peroxidase, mitochondrial: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome c peroxidase, mitochondrial

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