SMTL ID : 7su2.1

Crystal structure of a Co-bound RIDC1 variant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 x HEC: HEME C(Covalent)

HEC.1: 17 residues within 4Å: Chain A: E.4, M.7, E.8, L.10, N.11, L.14, M.33, P.45, P.46, F.61, G.64, F.65, 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.14, A:P.45, A:F.65, A:F.65, A:F.65, A:R.106, A:R.106 Hydrogen bonds: A:E.4, A:E.8 pi-Cation interactions: A:R.106 Metal complexes: A:H.102 HEC.3: 17 residues within 4Å: Chain B: E.4, M.7, L.10, N.11, L.14, M.33, P.45, P.46, F.61, G.64, F.65, L.68, C.98, C.101, H.102, Y.105, R.106 16 PLIP interactions: 16 interactions with chain B, Hydrophobic interactions: B:M.7, B:L.10, B:N.11, B:L.14, B:P.45, B:F.61, B:F.65, B:F.65, B:F.65, B:L.68, B:R.106 Hydrogen bonds: B:R.106 Water bridges: B:E.4, B:E.4 pi-Stacking: B:H.102 Metal complexes: B:H.102 HEC.5: 17 residues within 4Å: Chain C: E.4, M.7, L.10, N.11, L.14, M.33, P.45, P.46, F.61, G.64, F.65, L.68, C.98, C.101, H.102, Y.105, R.106 12 PLIP interactions: 12 interactions with chain C, Hydrophobic interactions: C:M.7, C:N.11, C:P.45, C:F.61, C:F.65, C:F.65, C:F.65, C:F.65, C:L.68, C:R.106, C:R.106 Metal complexes: C:H.102 HEC.7: 20 residues within 4Å: Chain D: L.3, E.4, M.7, E.8, L.10, N.11, L.14, M.33, P.45, P.46, F.61, G.64, F.65, L.68, L.94, C.98, C.101, H.102, Y.105, R.106 15 PLIP interactions: 15 interactions with chain D, Hydrophobic interactions: D:L.3, D:M.7, D:L.10, D:N.11, D:P.45, D:F.65, D:F.65, D:F.65, D:F.65, D:L.68, D:L.94, D:R.106 Hydrogen bonds: D:E.4 pi-Cation interactions: D:R.106 Metal complexes: D:H.102

4 x CO: COBALT (II) ION(Non-covalent)

CO.2: 4 residues within 4Å: Chain A: H.77, E.81 Chain B: H.77, E.81 5 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:H.77, A:E.81, B:H.77, B:E.81, H2O.1 CO.4: 2 residues within 4Å: Chain B: A.1, D.39 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:A.1, B:D.39, B:D.39 CO.6: 4 residues within 4Å: Chain C: H.77, E.81 Chain D: H.77, E.81 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain C Metal complexes: D:H.77, D:E.81, C:H.77, C:E.81, C:E.81 CO.8: 2 residues within 4Å: Chain D: D.2, D.5 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:D.2, D:D.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kakkis, A. et al., Redox- and metal-directed structural diversification in designed metalloprotein assemblies. Chem.Commun.(Camb.) (2022)

Release Date

2022-06-29

Peptides

Soluble cytochrome b562: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

B
A

C
C

D
G

Soluble cytochrome b562

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