SMTL ID : 4rsz.2 (6 other biounits)

The X-ray structure of the Primary Adduct formed in the Reaction between Cisplatin and Cytochrome c

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

monomer

Ligands

1 x HEC: HEME C(Covalent)

HEC.1: 27 residues within 4Å: Chain A: K.13, C.14, Q.16, C.17, H.18, T.28, G.29, P.30, L.32, L.35, T.40, G.41, F.46, Y.48, T.49, N.52, W.59, Y.67, L.68, T.78, K.79, M.80, I.81, F.82, I.85, L.94, L.98 25 PLIP interactions: 25 interactions with chain A, Hydrophobic interactions: A:L.32, A:L.32, A:L.35, A:F.46, A:W.59, A:Y.67, A:L.68, A:M.80, A:F.82, A:I.85, A:L.98 Hydrogen bonds: A:R.38, A:G.41, A:Q.42, A:Y.48, A:T.49, A:N.52, A:N.52, A:T.78, A:K.79 Water bridges: A:A.43, A:A.43 Salt bridges: A:K.79 pi-Stacking: A:Y.67 Metal complexes: A:H.18

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

SO4.2: 2 residues within 4Å: Chain A: K.100, E.104 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.104 Salt bridges: A:K.100

1 x CPT: Cisplatin(Non-covalent)

CPT.3: 4 residues within 4Å: Chain A: E.61, E.62, M.65, E.92 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.62

3 x NO3: NITRATE ION(Non-functional Binders)

NO3.4: 5 residues within 4Å: Chain A: F.10, H.18, T.19, V.20, E.21 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.20, A:E.21 NO3.5: 3 residues within 4Å: Chain A: F.82, A.83, G.84 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.83, A:G.84, A:G.84 NO3.6: 4 residues within 4Å: Chain A: G.41, F.46, T.47, Y.48 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.48

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ferraro, G. et al., The X-ray structure of the primary adducts formed in the reaction between cisplatin and cytochrome c. Chem.Commun.(Camb.) (2015)

Release Date

2015-01-14

Peptides

Cytochrome c: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Cytochrome c

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