SMTL ID : 2qla.1

Crystal Structure of a 16-Helix Bundle Architecture Produced by the Zinc-Mediated Self Assembly of Four Cytochrome cb562 Molecules

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-tetramer

Ligands

4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)

HEM.1: 16 residues within 4Å: Chain A: E.4, M.7, L.10, N.11, L.14, M.33, P.45, P.46, F.61, F.65, L.68, C.98, C.101, H.102, Y.105, R.106 13 PLIP interactions: 13 interactions with chain A, Hydrophobic interactions: A:M.7, A:L.10, A:L.10, A:L.10, A:L.14, A:P.45, A:F.61, A:F.65, A:F.65, A:L.68 pi-Stacking: A:H.102 pi-Cation interactions: A:H.102 Metal complexes: A:H.102 HEM.3: 16 residues within 4Å: Chain B: E.4, M.7, L.10, N.11, L.14, M.33, P.45, P.46, F.61, F.65, L.68, C.98, C.101, H.102, Y.105, R.106 14 PLIP interactions: 14 interactions with chain B, Hydrophobic interactions: B:M.7, B:L.10, B:L.10, B:L.10, B:L.14, B:P.45, B:F.61, B:F.65, B:F.65, B:L.68, B:R.106 Hydrogen bonds: B:E.4 pi-Stacking: B:H.102 Metal complexes: B:H.102 HEM.5: 16 residues within 4Å: Chain C: E.4, M.7, L.10, N.11, L.14, M.33, P.45, P.46, F.61, F.65, L.68, C.98, C.101, H.102, Y.105, R.106 15 PLIP interactions: 15 interactions with chain C, Hydrophobic interactions: C:M.7, C:L.10, C:L.10, C:L.10, C:L.14, C:P.45, C:F.61, C:F.65, C:F.65, C:F.65, C:L.68, C:R.106 Hydrogen bonds: C:E.4 pi-Stacking: C:H.102 Metal complexes: C:H.102 HEM.7: 16 residues within 4Å: Chain D: E.4, M.7, L.10, N.11, L.14, M.33, P.45, P.46, F.61, F.65, L.68, C.98, C.101, H.102, Y.105, R.106 13 PLIP interactions: 13 interactions with chain D, Hydrophobic interactions: D:M.7, D:L.10, D:L.10, D:L.10, D:L.14, D:P.45, D:F.61, D:F.65, D:F.65, D:F.65, D:L.68 pi-Stacking: D:H.102 Metal complexes: D:H.102

4 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.73, H.77 Chain C: D.74 Chain D: H.63 5 PLIP interactions: 2 interactions with chain A, 1 interactions with chain D, 2 interactions with chain C Metal complexes: A:H.73, A:H.77, D:H.63, C:D.74, C:D.74 ZN.4: 5 residues within 4Å: Chain B: H.73, H.77 Chain C: H.63, I.67 Chain D: D.74 5 PLIP interactions: 2 interactions with chain B, 2 interactions with chain D, 1 interactions with chain C Metal complexes: B:H.73, B:H.77, D:D.74, D:D.74, C:H.63 ZN.6: 4 residues within 4Å: Chain A: D.74 Chain B: H.63 Chain C: H.73, H.77 5 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B, 2 interactions with chain A Metal complexes: C:H.73, C:H.77, B:H.63, A:D.74, A:D.74 ZN.8: 5 residues within 4Å: Chain A: H.63, I.67 Chain B: D.74 Chain D: H.73, H.77 5 PLIP interactions: 2 interactions with chain D, 1 interactions with chain A, 2 interactions with chain B Metal complexes: D:H.73, D:H.77, A:H.63, B:D.74, B:D.74

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Salgado, E.N. et al., Controlling protein-protein interactions through metal coordination: assembly of a 16-helix bundle protein. J.Am.Chem.Soc. (2007)

Release Date

2007-11-06

Peptides

Soluble cytochrome b562: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Soluble cytochrome b562

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