SMTL ID : 3m15.1

A Zn-mediated asymmetric trimer of a cytochrome cb562 variant (D74A-RIDC1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-trimer

Ligands

3 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 19 residues within 4Å: Chain A: 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, 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:N.11, A:L.14, A:P.45, A:F.65, A:F.65, A:F.65, A:L.68, A:R.106 pi-Cation interactions: A:R.106 Metal complexes: A:H.102 HEM.3: 18 residues within 4Å: Chain B: L.3, E.4, M.7, L.10, N.11, L.14, M.33, P.45, P.46, F.61, G.64, F.65, L.94, C.98, C.101, H.102, Y.105, R.106 17 PLIP interactions: 17 interactions with chain B, Hydrophobic interactions: B:L.3, B:M.7, B:L.10, B:L.10, B:N.11, B:P.45, B:F.61, B:F.65, B:F.65, B:F.65, B:L.94, B:R.106 Hydrogen bonds: B:E.4 pi-Stacking: B:H.102 pi-Cation interactions: B:H.102, B:R.106 Metal complexes: B:H.102 HEM.5: 20 residues within 4Å: Chain C: 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 10 PLIP interactions: 10 interactions with chain C, Hydrophobic interactions: C:L.3, C:M.7, C:P.45, C:F.65, C:L.68, C:L.68, C:L.94, C:R.106 Hydrogen bonds: C:E.8 Metal complexes: C:H.102

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.73, H.77 Chain B: H.59 Chain C: H.59 4 PLIP interactions: 1 interactions with chain C, 2 interactions with chain A, 1 interactions with chain B Metal complexes: C:H.59, A:H.73, A:H.77, B:H.59 ZN.4: 4 residues within 4Å: Chain A: H.59 Chain B: H.73, H.77 Chain C: H.77 4 PLIP interactions: 1 interactions with chain C, 2 interactions with chain B, 1 interactions with chain A Metal complexes: C:H.77, B:H.73, B:H.77, A:H.59

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ni, T.W. et al., Structural characterization of a microperoxidase inside a metal-directed protein cage. Angew.Chem.Int.Ed.Engl. (2010)

Release Date

2011-01-12

Peptides

Soluble cytochrome b562: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Soluble cytochrome b562