- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.95 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)
- 6 x CU: COPPER (II) ION(Non-covalent)
CU.2: 5 residues within 4Å:- Chain A: P.83, H.84, C.125, H.133, M.138
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:H.84, A:C.125, A:H.133
CU.3: 5 residues within 4Å:- Chain A: D.87, H.89, H.124
- Chain C: H.230, H.279
4 PLIP interactions:1 interactions with chain C, 2 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: C:H.279, A:H.89, A:H.124, H2O.16
CU.9: 5 residues within 4Å:- Chain B: P.83, H.84, C.125, H.133, M.138
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:H.84, B:C.125, B:H.133
CU.10: 5 residues within 4Å:- Chain A: H.230, H.279
- Chain B: D.87, H.89, H.124
4 PLIP interactions:2 interactions with chain B, 1 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: B:H.89, B:H.124, A:H.279, H2O.31
CU.16: 5 residues within 4Å:- Chain C: P.83, H.84, C.125, H.133, M.138
3 PLIP interactions:3 interactions with chain C- Metal complexes: C:H.84, C:C.125, C:H.133
CU.17: 5 residues within 4Å:- Chain B: H.230, H.279
- Chain C: D.87, H.89, H.124
4 PLIP interactions:2 interactions with chain C, 1 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: C:H.89, C:H.124, B:H.279, H2O.47
- 3 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)
HEM.4: 29 residues within 4Å:- Chain A: N.349, C.350, C.353, H.354, A.364, F.365, P.366, P.367, L.368, S.371, Y.373, L.374, G.381, I.385, L.389, S.390, G.391, I.393, V.395, Y.400, N.401, G.402, V.403, M.404, P.405, L.409
- Chain B: Q.321
- Chain C: A.128, P.129
16 PLIP interactions:1 interactions with chain C, 15 interactions with chain A,- Hydrophobic interactions: C:P.129, A:F.365, A:P.366, A:L.368, A:L.368, A:Y.373, A:Y.373, A:L.374, A:L.389, A:V.395, A:M.404, A:L.409
- Hydrogen bonds: A:S.371, A:G.402
- Water bridges: A:N.401
- Metal complexes: A:H.354
HEM.11: 29 residues within 4Å:- Chain A: A.128, P.129
- Chain B: N.349, C.350, C.353, H.354, A.364, F.365, P.366, P.367, L.368, S.371, Y.373, L.374, G.381, I.385, L.389, S.390, G.391, I.393, V.395, Y.400, N.401, G.402, V.403, M.404, P.405, L.409
- Chain C: Q.321
16 PLIP interactions:1 interactions with chain A, 15 interactions with chain B,- Hydrophobic interactions: A:P.129, B:F.365, B:P.366, B:L.368, B:L.368, B:Y.373, B:Y.373, B:L.374, B:L.389, B:V.395, B:M.404, B:L.409
- Hydrogen bonds: B:S.371, B:G.402
- Water bridges: B:N.401
- Metal complexes: B:H.354
HEM.18: 29 residues within 4Å:- Chain A: Q.321
- Chain B: A.128, P.129
- Chain C: N.349, C.350, C.353, H.354, A.364, F.365, P.366, P.367, L.368, S.371, Y.373, L.374, G.381, I.385, L.389, S.390, G.391, I.393, V.395, Y.400, N.401, G.402, V.403, M.404, P.405, L.409
16 PLIP interactions:15 interactions with chain C, 1 interactions with chain B,- Hydrophobic interactions: C:F.365, C:P.366, C:L.368, C:L.368, C:Y.373, C:Y.373, C:L.374, C:L.389, C:V.395, C:M.404, C:L.409, B:P.129
- Hydrogen bonds: C:S.371, C:G.402
- Water bridges: C:N.401
- Metal complexes: C:H.354
- 9 x SO4: SULFATE ION(Non-functional Binders)
SO4.5: 4 residues within 4Å:- Chain A: D.24, S.26, R.65, K.147
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.26
- Salt bridges: A:R.65, A:K.147
SO4.6: 3 residues within 4Å:- Chain A: N.334, K.335, K.431
7 PLIP interactions:7 interactions with chain A- Hydrogen bonds: A:K.335
- Water bridges: A:N.334, A:D.336, A:K.431, A:K.431, A:K.431
- Salt bridges: A:K.431
SO4.7: 4 residues within 4Å:- Chain A: R.41, A.43, D.44, G.45
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:G.45
SO4.12: 4 residues within 4Å:- Chain B: D.24, S.26, R.65, K.147
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:S.26
- Salt bridges: B:R.65, B:K.147
SO4.13: 3 residues within 4Å:- Chain B: N.334, K.335, K.431
7 PLIP interactions:7 interactions with chain B- Hydrogen bonds: B:K.335
- Water bridges: B:N.334, B:D.336, B:K.431, B:K.431, B:K.431
- Salt bridges: B:K.431
SO4.14: 4 residues within 4Å:- Chain B: R.41, A.43, D.44, G.45
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:G.45
SO4.19: 4 residues within 4Å:- Chain C: D.24, S.26, R.65, K.147
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:S.26
- Salt bridges: C:R.65, C:K.147
SO4.20: 3 residues within 4Å:- Chain C: N.334, K.335, K.431
7 PLIP interactions:7 interactions with chain C- Hydrogen bonds: C:K.335
- Water bridges: C:N.334, C:D.336, C:K.431, C:K.431, C:K.431
- Salt bridges: C:K.431
SO4.21: 4 residues within 4Å:- Chain C: R.41, A.43, D.44, G.45
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:G.45
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nojiri, M. et al., Electron transfer processes within and between proteins containing the HEME C and blue Cu. To be Published
- Release Date
- 2009-06-09
- Peptides
- Probable nitrite reductase: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.95 Å
- Oligo State
- homo-trimer
- Ligands
- 3 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)
- 6 x CU: COPPER (II) ION(Non-covalent)
- 3 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)
- 9 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Nojiri, M. et al., Electron transfer processes within and between proteins containing the HEME C and blue Cu. To be Published
- Release Date
- 2009-06-09
- Peptides
- Probable nitrite reductase: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A