SMTL ID : 3x32.1

Crystal structure of the oxidized form of the solubilized domain of porcine cytochrome b5 in form 1 crystal

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 0.83 Å

Oligo State

monomer

Ligands

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

HEM.1: 22 residues within 4Å: Chain A: L.28, L.30, Y.35, L.37, F.40, H.44, P.45, G.46, V.50, L.51, Q.54, A.59, N.62, F.63, V.66, G.67, H.68, S.69, A.72, L.75, S.76, F.79 21 PLIP interactions: 21 interactions with chain A, Hydrophobic interactions: A:L.37, A:F.40, A:P.45, A:P.45, A:V.50, A:L.51, A:Q.54, A:A.59, A:N.62, A:F.63, A:F.63, A:V.66, A:V.66, A:A.72 Hydrogen bonds: A:V.66, A:G.67, A:S.69 Water bridges: A:S.69 pi-Stacking: A:H.44 Metal complexes: A:H.44, A:H.68

2 x CA: CALCIUM ION(Non-covalent)

CA.2: 2 residues within 4Å: Chain A: E.42, E.48 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.42, A:E.42, A:E.48, A:E.48, H2O.1 CA.3: 1 residues within 4Å: Chain A: E.42 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:E.42, H2O.1, H2O.1, H2O.2, H2O.2

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.4: 3 residues within 4Å: Chain A: S.69, T.70, D.71 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.70, A:T.70, A:D.71

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hirano, Y. et al., High-resolution crystal structures of the solubilized domain of porcine cytochrome b5. Acta Crystallogr.,Sect.D (2015)

Release Date

2015-07-15

Peptides

Cytochrome b5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cytochrome b5

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