SMTL ID : 2xj8.1

The structure of ferrous cytochrome c peroxidase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.69 Å

Oligo State

monomer

Ligands

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 4 residues within 4Å: Chain A: D.254, D.256, K.257, K.260 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:D.256, A:K.257 Hydrogen bonds: A:D.256 MPD.2: 6 residues within 4Å: Chain A: D.146, D.148, K.149, S.185, Y.187, N.220 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:D.146, A:D.148, A:Y.187 Hydrogen bonds: A:D.148, A:Y.187, A:Y.187 Water bridges: A:N.220

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

HEM.3: 22 residues within 4Å: Chain A: P.44, V.45, R.48, W.51, P.145, D.146, A.147, F.158, L.171, M.172, A.174, H.175, L.177, G.178, K.179, T.180, H.181, N.184, S.185, W.191, L.232, T.234 26 PLIP interactions: 25 interactions with chain A, 1 Ligand-Water interactions Hydrophobic interactions: A:R.48, A:W.51, A:W.51, A:W.51, A:P.145, A:A.147, A:F.158, A:L.171, A:A.174, A:L.177, A:T.180, A:W.191, A:L.232 Hydrogen bonds: A:K.179, A:H.181, A:N.184, A:S.185 Water bridges: A:V.45, A:H.181 Salt bridges: A:R.48, A:H.181, A:H.181 pi-Stacking: A:W.51 pi-Cation interactions: A:R.48 Metal complexes: A:H.175, H2O.22

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gumiero, A. et al., Nature of the ferryl heme in compounds I and II. J. Biol. Chem. (2011)

Release Date

2010-07-14

Peptides

CYTOCHROME C PEROXIDASE, MITOCHONDRIAL: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

CYTOCHROME C PEROXIDASE, MITOCHONDRIAL

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