SMTL ID : 2zon.1

Crystal structure of electron transfer complex of nitrite reductase with cytochrome c

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

hetero-3-1-mer

Ligands

6 x CU: COPPER (II) ION(Non-covalent)

CU.1: 5 residues within 4Å: Chain A: H.89, C.130, P.132, H.139, M.144 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.89, A:C.130, A:H.139 CU.2: 5 residues within 4Å: Chain A: D.92, H.94, H.129 Chain B: H.249, H.300 4 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: A:H.94, A:H.129, B:H.300, H2O.9 CU.3: 5 residues within 4Å: Chain B: H.89, C.130, P.132, H.139, M.144 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.89, B:C.130, B:H.139 CU.4: 5 residues within 4Å: Chain B: D.92, H.94, H.129 Chain C: H.249, H.300 4 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: B:H.94, B:H.129, C:H.300, H2O.18 CU.5: 5 residues within 4Å: Chain C: H.89, C.130, P.132, H.139, M.144 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.89, C:C.130, C:H.139 CU.6: 4 residues within 4Å: Chain A: H.300 Chain C: D.92, H.94, H.129 4 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: C:H.94, C:H.129, A:H.300, H2O.31

1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)

HEM.7: 22 residues within 4Å: Chain A: M.87 Chain D: L.15, C.20, C.23, H.24, A.29, A.31, P.32, W.40, F.43, T.54, V.55, K.59, G.60, A.61, M.62, P.63, R.65, G.66, L.75, A.78, M.82 16 PLIP interactions: 16 interactions with chain D, Hydrophobic interactions: D:L.15, D:A.31, D:W.40, D:T.54, D:V.55, D:K.59, D:L.75, D:A.78 Water bridges: D:Q.46, D:Q.46, D:Q.46, D:T.54, D:A.61 Salt bridges: D:K.59, D:K.59 Metal complexes: D:H.24

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nojiri, M. et al., Structural basis of inter-protein electron transfer for nitrite reduction in denitrification. Nature (2009)

Release Date

2009-06-09

Peptides

Dissimilatory copper-containing nitrite reductase: ABC
cytochrome c551: D

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
G

Dissimilatory copper-containing nitrite reductase

cytochrome c551

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