SMTL ID : 1m1p.11 (12 other biounits)

P21 crystal structure of the tetraheme cytochrome c3 from Shewanella oneidensis MR1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-dimer

Ligands

8 x HEC: HEME C(Covalent)(Non-covalent)

HEC.1: 13 residues within 4Å: Chain A: S.6, H.9, A.10, G.14, C.15, C.18, H.19, P.24, A.59, A.63, V.64, H.65 Ligands: HEC.3 6 PLIP interactions: 6 interactions with chain A, Hydrophobic interactions: A:P.24, A:A.59, A:V.64 Hydrogen bonds: A:V.64 Metal complexes: A:H.19, A:H.65 HEC.2: 14 residues within 4Å: Chain A: V.48, P.51, H.52, N.55, L.56, D.60, C.61, C.75, C.78, H.79, R.83, T.84, V.88 Ligands: HEC.4 15 PLIP interactions: 15 interactions with chain A, Hydrophobic interactions: A:V.48, A:P.51, A:P.51, A:L.56, A:V.88 Water bridges: A:H.79, A:R.83, A:R.83, A:R.83 Salt bridges: A:R.83 pi-Stacking: A:H.79 pi-Cation interactions: A:H.79, A:R.83 Metal complexes: A:H.52, A:H.79 HEC.3: 21 residues within 4Å: Chain A: L.5, F.8, H.9, S.17, C.18, Q.34, C.35, C.38, H.39, C.58, H.62, V.64, V.69, G.70 Chain B: S.37, C.38, H.39 Ligands: HEC.1, HEC.4, HEC.8, HEC.9 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:L.5, A:L.5, A:F.8, A:Q.34, A:H.62, A:V.64 Hydrogen bonds: A:G.70 Water bridges: A:F.8, A:Q.71 Metal complexes: A:H.9, A:H.39 Salt bridges: B:H.39 HEC.4: 18 residues within 4Å: Chain A: H.39, G.40, L.42, M.45, V.48, H.49, H.52, L.56, V.57, C.58, C.61, H.62, K.72, P.73, S.85, L.89 Ligands: HEC.2, HEC.3 11 PLIP interactions: 11 interactions with chain A, Hydrophobic interactions: A:H.39, A:L.42, A:V.48, A:L.56, A:K.72, A:P.73, A:L.89 Hydrogen bonds: A:S.85 Salt bridges: A:K.72 Metal complexes: A:H.49, A:H.62 HEC.6: 12 residues within 4Å: Chain B: S.6, H.9, C.15, S.17, C.18, H.19, P.24, E.31, A.59, V.64, H.65 Ligands: HEC.8 7 PLIP interactions: 7 interactions with chain B, Hydrophobic interactions: B:P.24, B:E.31, B:V.64 Water bridges: B:H.62, B:V.64 Metal complexes: B:H.19, B:H.65 HEC.7: 16 residues within 4Å: Chain B: P.51, H.52, N.55, L.56, C.61, P.73, T.74, C.75, S.77, C.78, H.79, R.83, T.84, S.85, V.88 Ligands: HEC.9 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:P.51, B:P.51, B:N.55, B:L.56, B:L.56, B:V.88 Water bridges: B:R.83, B:R.83 Salt bridges: B:H.79, B:R.83 pi-Stacking: B:H.79, B:H.79 pi-Cation interactions: B:R.83 Metal complexes: B:H.52, B:H.79 HEC.8: 19 residues within 4Å: Chain A: C.38, H.39 Chain B: L.5, F.8, H.9, S.17, C.18, Q.34, C.35, C.38, H.39, C.58, H.62, V.64, V.69, G.70 Ligands: HEC.3, HEC.6, HEC.9 11 PLIP interactions: 11 interactions with chain B, Hydrophobic interactions: B:L.5, B:L.5, B:F.8, B:Q.34, B:H.62, B:V.64 Hydrogen bonds: B:G.70 Water bridges: B:F.8, B:S.12 Metal complexes: B:H.9, B:H.39 HEC.9: 19 residues within 4Å: Chain B: H.39, L.42, M.45, D.46, V.48, H.49, H.52, L.56, V.57, C.58, C.61, H.62, K.72, P.73, S.85, L.89 Ligands: HEC.3, HEC.7, HEC.8 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:H.39, B:L.42, B:L.42, B:V.48, B:L.56, B:K.72, B:P.73, B:L.89 Water bridges: B:D.46, B:D.46, B:H.49, B:H.49 Salt bridges: B:H.49 Metal complexes: B:H.49, B:H.62

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

SO4.5: 4 residues within 4Å: Chain B: H.79, D.80, D.81, R.83 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.80, B:D.81 Water bridges: B:R.83 Salt bridges: B:H.79, B:R.83

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Leys, D. et al., Crystal structures at atomic resolution reveal the novel concept of 'electron-harvesting' as a role for the small tetraheme cytochrome c. J.Biol.Chem. (2002)

Release Date

2002-08-14

Peptides

Small tetraheme cytochrome c: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

Small tetraheme cytochrome c

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