- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.30 Å
- Oligo State
- homo-trimer
- Ligands
- 6 x CU: COPPER (II) ION(Non-covalent)
- 3 x NO2: NITRITE ION(Non-covalent)
NO2.3: 8 residues within 4Å:- Chain A: D.96, H.98, H.133
- Chain C: H.253, I.255, H.304, L.306
- Ligands: CU.2
No protein-ligand interaction detected (PLIP)NO2.4: 8 residues within 4Å:- Chain A: H.253, I.255, H.304, L.306
- Chain B: D.96, H.98, H.133
- Ligands: CU.18
1 PLIP interactions:1 interactions with chain B- Water bridges: B:D.96
NO2.19: 8 residues within 4Å:- Chain B: H.253, I.255, H.304, L.306
- Chain C: D.96, H.98, H.133
- Ligands: CU.26
No protein-ligand interaction detected (PLIP)- 22 x GOL: GLYCEROL(Non-functional Binders)
GOL.5: 6 residues within 4Å:- Chain A: V.49, I.50, D.51, D.52, A.221, V.222
Ligand excluded by PLIPGOL.6: 7 residues within 4Å:- Chain A: Y.191, T.214, H.215, V.222, E.311, L.312
- Chain B: R.209
Ligand excluded by PLIPGOL.7: 4 residues within 4Å:- Chain A: P.137, V.140
- Chain C: I.255, A.300
Ligand excluded by PLIPGOL.8: 6 residues within 4Å:- Chain A: L.211, R.248
- Chain C: R.248, R.251, N.305, E.308
Ligand excluded by PLIPGOL.9: 2 residues within 4Å:- Chain A: D.228, K.229
Ligand excluded by PLIPGOL.10: 5 residues within 4Å:- Chain A: G.227, D.228, A.230, T.232, K.319
Ligand excluded by PLIPGOL.11: 4 residues within 4Å:- Chain A: F.22, V.23, K.172, I.173
Ligand excluded by PLIPGOL.12: 2 residues within 4Å:- Chain A: K.172, T.232
Ligand excluded by PLIPGOL.13: 3 residues within 4Å:- Chain A: E.44, K.46, G.64
Ligand excluded by PLIPGOL.14: 5 residues within 4Å:- Chain A: W.324, D.326, T.330, S.331
- Chain B: L.109
Ligand excluded by PLIPGOL.15: 0 residues within 4Å:- (No contacts)
Ligand excluded by PLIPGOL.20: 4 residues within 4Å:- Chain A: A.300
- Chain B: L.104, P.137, V.140
Ligand excluded by PLIPGOL.21: 9 residues within 4Å:- Chain B: V.57, W.142, V.145, S.146, F.181, Y.182, V.183, P.184, T.204
Ligand excluded by PLIPGOL.22: 5 residues within 4Å:- Chain B: W.324, D.326, T.330, S.331
- Chain C: L.109
Ligand excluded by PLIPGOL.23: 7 residues within 4Å:- Chain B: Y.191, T.214, H.215, V.222, E.311, L.312
- Chain C: R.209
Ligand excluded by PLIPGOL.27: 9 residues within 4Å:- Chain A: T.210, L.211, T.212
- Chain B: T.210, L.211, T.212
- Chain C: T.210, L.211, T.212
Ligand excluded by PLIPGOL.28: 5 residues within 4Å:- Chain B: I.255, A.300, H.317
- Chain C: P.137, V.140
Ligand excluded by PLIPGOL.29: 6 residues within 4Å:- Chain A: L.109
- Chain C: W.324, D.326, T.330, S.331
- Ligands: GOL.33
Ligand excluded by PLIPGOL.30: 5 residues within 4Å:- Chain C: A.25, H.26, Q.28, Y.170, D.171
Ligand excluded by PLIPGOL.31: 8 residues within 4Å:- Chain C: Q.13, V.15, H.24, H.26, K.35, V.37, V.72, V.73
Ligand excluded by PLIPGOL.32: 7 residues within 4Å:- Chain A: R.209
- Chain C: Y.191, T.214, H.215, V.222, E.311, L.312
Ligand excluded by PLIPGOL.33: 7 residues within 4Å:- Chain A: A.103, G.108, L.109
- Chain C: P.296, G.297, W.324
- Ligands: GOL.29
Ligand excluded by PLIP- 2 x ACY: ACETIC ACID(Non-functional Binders)
ACY.16: 9 residues within 4Å:- Chain A: G.138, M.139, V.140, P.141, W.142, Y.201, V.205, M.208
- Chain C: E.311
3 PLIP interactions:1 interactions with chain C, 2 interactions with chain A- Hydrogen bonds: C:E.311, A:M.139, A:W.142
ACY.24: 9 residues within 4Å:- Chain A: E.311
- Chain B: G.138, M.139, V.140, P.141, W.142, Y.201, V.205, M.208
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:E.311, B:W.142
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Fukuda, Y. et al., Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography. Proc.Natl.Acad.Sci.USA (2016)
- Release Date
- 2016-03-09
- Peptides
- Copper-containing nitrite reductase: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.30 Å
- Oligo State
- homo-trimer
- Ligands
- 6 x CU: COPPER (II) ION(Non-covalent)
- 3 x NO2: NITRITE ION(Non-covalent)
- 22 x GOL: GLYCEROL(Non-functional Binders)
- 2 x ACY: ACETIC ACID(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Fukuda, Y. et al., Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography. Proc.Natl.Acad.Sci.USA (2016)
- Release Date
- 2016-03-09
- Peptides
- Copper-containing nitrite reductase: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
BC
C