- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.12 Å
- Oligo State
- homo-trimer
- Ligands
- 6 x CU: COPPER (II) ION(Non-covalent)
- 3 x HOA: HYDROXYAMINE(Non-covalent)
HOA.3: 8 residues within 4Å:- Chain A: D.98, H.100, H.135
- Chain C: H.255, I.257, H.306, L.308
- Ligands: CU.2
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:D.98
- Water bridges: A:D.98
HOA.12: 8 residues within 4Å:- Chain A: H.255, I.257, H.306, L.308
- Chain B: D.98, H.100, H.135
- Ligands: CU.11
3 PLIP interactions:1 interactions with chain A, 2 interactions with chain B- Hydrogen bonds: A:H.255, B:D.98
- Water bridges: B:D.98
HOA.21: 8 residues within 4Å:- Chain B: H.255, I.257, H.306, L.308
- Chain C: D.98, H.100, H.135
- Ligands: CU.20
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:D.98, C:D.98
- Water bridges: C:D.98
- 3 x MLI: MALONATE ION(Non-functional Binders)
MLI.4: 9 residues within 4Å:- Chain A: R.250, D.251, R.253
- Chain C: R.250, R.253, N.307, E.310
- Ligands: MLI.13, MLI.22
18 PLIP interactions:3 interactions with chain B, 5 interactions with chain C, 10 interactions with chain A- Water bridges: B:D.251, B:D.251, B:D.251, C:R.250, A:R.250, A:R.250, A:R.250, A:D.251, A:D.251, A:D.251
- Hydrogen bonds: C:N.307, A:D.251, A:R.253
- Salt bridges: C:R.250, C:R.253, C:R.253, A:R.250, A:R.250
MLI.13: 9 residues within 4Å:- Chain A: R.250, R.253, N.307, E.310
- Chain B: R.250, D.251, R.253
- Ligands: MLI.4, MLI.22
19 PLIP interactions:11 interactions with chain B, 5 interactions with chain A, 3 interactions with chain C- Hydrogen bonds: B:D.251, B:D.251, B:R.253, A:N.307
- Water bridges: B:R.250, B:R.250, B:R.250, B:D.251, B:D.251, B:D.251, A:R.250, C:D.251, C:D.251, C:D.251
- Salt bridges: B:R.250, B:R.250, A:R.250, A:R.253, A:R.253
MLI.22: 9 residues within 4Å:- Chain B: R.250, R.253, N.307, E.310
- Chain C: R.250, D.251, R.253
- Ligands: MLI.4, MLI.13
19 PLIP interactions:11 interactions with chain C, 3 interactions with chain A, 5 interactions with chain B- Hydrogen bonds: C:D.251, C:D.251, C:R.253, B:N.307
- Water bridges: C:R.250, C:R.250, C:R.250, C:D.251, C:D.251, C:D.251, A:D.251, A:D.251, A:D.251, B:R.250
- Salt bridges: C:R.250, C:R.250, B:R.250, B:R.253, B:R.253
- 12 x ACT: ACETATE ION(Non-functional Binders)
ACT.5: 4 residues within 4Å:- Chain A: T.228, G.229, A.232, H.319
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:G.229
- Water bridges: A:H.319
- Salt bridges: A:H.319
ACT.7: 7 residues within 4Å:- Chain A: D.275, Q.278
- Chain B: W.265, T.267, G.268, K.269, N.272
9 PLIP interactions:8 interactions with chain B, 1 interactions with chain A- Hydrophobic interactions: B:W.265, B:N.272
- Hydrogen bonds: B:T.267, B:T.267, B:K.269, B:N.272, A:Q.278
- Water bridges: B:A.266, B:T.267
ACT.8: 7 residues within 4Å:- Chain A: V.243, L.256, H.260, G.261, A.291, F.292, Y.293
2 PLIP interactions:2 interactions with chain A- Hydrophobic interactions: A:V.243, A:A.291
ACT.9: 3 residues within 4Å:- Chain A: H.28, Q.30, Y.172
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:Q.30
- Water bridges: A:H.28, A:H.28, A:Q.30
- Salt bridges: A:H.28
ACT.14: 4 residues within 4Å:- Chain B: T.228, G.229, A.232, H.319
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:G.229
- Salt bridges: B:H.319
ACT.16: 7 residues within 4Å:- Chain B: D.275, Q.278
- Chain C: W.265, T.267, G.268, K.269, N.272
9 PLIP interactions:8 interactions with chain C, 1 interactions with chain B- Hydrophobic interactions: C:W.265, C:N.272
- Hydrogen bonds: C:T.267, C:T.267, C:K.269, C:N.272, B:Q.278
- Water bridges: C:A.266, C:T.267
ACT.17: 7 residues within 4Å:- Chain B: V.243, L.256, H.260, G.261, A.291, F.292, Y.293
2 PLIP interactions:2 interactions with chain B- Hydrophobic interactions: B:V.243, B:A.291
ACT.18: 3 residues within 4Å:- Chain B: H.28, Q.30, Y.172
5 PLIP interactions:5 interactions with chain B- Hydrogen bonds: B:Q.30
- Water bridges: B:H.28, B:H.28, B:Q.30
- Salt bridges: B:H.28
ACT.23: 4 residues within 4Å:- Chain C: T.228, G.229, A.232, H.319
3 PLIP interactions:3 interactions with chain C- Hydrogen bonds: C:G.229
- Water bridges: C:H.319
- Salt bridges: C:H.319
ACT.25: 7 residues within 4Å:- Chain A: W.265, T.267, G.268, K.269, N.272
- Chain C: D.275, Q.278
8 PLIP interactions:7 interactions with chain A, 1 interactions with chain C- Hydrophobic interactions: A:W.265, A:N.272
- Hydrogen bonds: A:T.267, A:K.269, A:N.272, C:Q.278
- Water bridges: A:A.266, A:T.267
ACT.26: 7 residues within 4Å:- Chain C: V.243, L.256, H.260, G.261, A.291, F.292, Y.293
2 PLIP interactions:2 interactions with chain C- Hydrophobic interactions: C:V.243, C:A.291
ACT.27: 3 residues within 4Å:- Chain C: H.28, Q.30, Y.172
5 PLIP interactions:5 interactions with chain C- Hydrogen bonds: C:Q.30
- Water bridges: C:H.28, C:H.28, C:D.29
- Salt bridges: C:H.28
- 3 x PO4: PHOSPHATE ION(Non-functional Binders)
PO4.6: 5 residues within 4Å:- Chain A: V.17, D.18, L.19, T.42, N.65
8 PLIP interactions:8 interactions with chain A- Hydrogen bonds: A:L.19, A:T.42, A:N.65
- Water bridges: A:D.18, A:D.18, A:L.19, A:T.42, A:T.44
PO4.15: 5 residues within 4Å:- Chain B: V.17, D.18, L.19, T.42, N.65
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:L.19, B:T.42, B:N.65
- Water bridges: B:D.18, B:D.18, B:L.19, B:T.42, B:T.44
PO4.24: 5 residues within 4Å:- Chain C: V.17, D.18, L.19, T.42, N.65
8 PLIP interactions:8 interactions with chain C- Hydrogen bonds: C:L.19, C:T.42, C:N.65
- Water bridges: C:D.18, C:D.18, C:L.19, C:T.42, C:T.44
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Antonyuk, S.V. et al., Atomic Resolution Structures of Resting-State, Substrate- and Product-Complexed Cu-Nitrite Reductase Provide Insight Into Catalytic Mechanism. Proc.Natl.Acad.Sci.USA (2005)
- Release Date
- 2005-08-17
- Peptides
- COPPER-CONTAINING NITRITE REDUCTASE: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.12 Å
- Oligo State
- homo-trimer
- Ligands
- 6 x CU: COPPER (II) ION(Non-covalent)
- 3 x HOA: HYDROXYAMINE(Non-covalent)
- 3 x MLI: MALONATE ION(Non-functional Binders)
- 12 x ACT: ACETATE ION(Non-functional Binders)
- 3 x PO4: PHOSPHATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Antonyuk, S.V. et al., Atomic Resolution Structures of Resting-State, Substrate- and Product-Complexed Cu-Nitrite Reductase Provide Insight Into Catalytic Mechanism. Proc.Natl.Acad.Sci.USA (2005)
- Release Date
- 2005-08-17
- Peptides
- COPPER-CONTAINING NITRITE REDUCTASE: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A