SMTL ID : 3nbs.1 (1 other biounit)

Crystal structure of dimeric cytochrome c from horse heart

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x HEC: HEME C(Covalent)

HEC.1: 22 residues within 4Å: Chain A: K.13, C.14, C.17, H.18, T.28, G.29, P.30, T.40, G.41, F.46, Y.48, T.49, N.52, W.59, L.64, Y.67, L.68, T.78, K.79 Chain B: M.80, F.82, L.94 20 PLIP interactions: 17 interactions with chain A, 2 interactions with chain B, 1 Ligand-Water interactions, Hydrophobic interactions: A:T.28, A:F.46, A:W.59, A:L.64, A:Y.67, A:L.68, B:F.82, B:F.82 Hydrogen bonds: A:G.41, A:Y.48, A:T.49, A:N.52, A:N.52, A:T.78, A:T.78, A:K.79 Water bridges: A:Q.42, A:A.43 Metal complexes: A:H.18, H2O.1 HEC.3: 22 residues within 4Å: Chain A: M.80, F.82, I.85, L.94 Chain B: K.13, C.14, C.17, H.18, T.28, G.29, L.35, T.40, G.41, Y.48, T.49, N.52, W.59, L.64, Y.67, T.78, M.80 Ligands: PEG.4 17 PLIP interactions: 13 interactions with chain B, 3 interactions with chain A, 1 Ligand-Water interactions, Hydrophobic interactions: B:L.35, B:W.59, B:L.64, B:Y.67, A:F.82, A:F.82, A:I.85 Hydrogen bonds: B:G.41, B:Q.42, B:T.49, B:N.52, B:T.78, B:T.78 Water bridges: B:R.38, B:A.43 Metal complexes: B:H.18, H2O.3

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.2: 6 residues within 4Å: Chain A: K.55, I.57, E.66, K.73, Y.74, P.76 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.55

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 5 residues within 4Å: Chain A: Q.16, T.28 Chain B: Q.16, T.28 Ligands: HEC.3 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:T.28, B:T.28 Water bridges: B:K.13

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hirota, S. et al., Cytochrome c polymerization by successive domain swapping at the C-terminal helix. Proc.Natl.Acad.Sci.USA (2010)

Release Date

2010-07-14

Peptides

Cytochrome c: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cytochrome c

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