- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.12 Å
- Oligo State
- homo-trimer
- Ligands
- 15 x CU: COPPER (II) ION(Non-covalent)
- 3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
MPD.3: 7 residues within 4Å:- Chain A: D.163, V.166, D.167, R.168, E.169, R.229, Y.231
5 PLIP interactions:5 interactions with chain A- Hydrophobic interactions: A:D.163, A:V.166
- Hydrogen bonds: A:E.169
- Water bridges: A:E.169, A:E.169
MPD.11: 7 residues within 4Å:- Chain B: D.163, V.166, D.167, R.168, E.169, R.229, Y.231
5 PLIP interactions:5 interactions with chain B- Hydrophobic interactions: B:D.163, B:V.166
- Hydrogen bonds: B:E.169
- Water bridges: B:E.169, B:E.169
MPD.19: 7 residues within 4Å:- Chain C: D.163, V.166, D.167, R.168, E.169, R.229, Y.231
5 PLIP interactions:5 interactions with chain C- Hydrophobic interactions: C:D.163, C:V.166
- Hydrogen bonds: C:E.169
- Water bridges: C:E.169, C:E.169
- 6 x NO2: NITRITE ION(Non-covalent)
NO2.4: 11 residues within 4Å:- Chain A: N.98, H.100, H.134, V.140
- Chain C: H.244, V.246, V.292, H.294, F.296
- Ligands: CU.2, NO2.5
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:N.98
NO2.5: 9 residues within 4Å:- Chain A: N.98, H.100, F.110, H.134
- Chain C: H.244, V.246, G.247
- Ligands: CU.2, NO2.4
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain C- Hydrogen bonds: A:N.98, C:H.244
NO2.12: 11 residues within 4Å:- Chain A: H.244, V.246, V.292, H.294, F.296
- Chain B: N.98, H.100, H.134, V.140
- Ligands: CU.10, NO2.13
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:N.98
NO2.13: 9 residues within 4Å:- Chain A: H.244, V.246, G.247
- Chain B: N.98, H.100, F.110, H.134
- Ligands: CU.10, NO2.12
2 PLIP interactions:1 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:N.98, A:H.244
NO2.20: 11 residues within 4Å:- Chain B: H.244, V.246, V.292, H.294, F.296
- Chain C: N.98, H.100, H.134, V.140
- Ligands: CU.18, NO2.21
1 PLIP interactions:1 interactions with chain C- Hydrogen bonds: C:N.98
NO2.21: 9 residues within 4Å:- Chain B: H.244, V.246, G.247
- Chain C: N.98, H.100, F.110, H.134
- Ligands: CU.18, NO2.20
2 PLIP interactions:1 interactions with chain C, 1 interactions with chain B- Hydrogen bonds: C:N.98, B:H.244
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Fukuda, Y. et al., Structural basis of cuproenzyme nitrite reduction at the level of a single hydrogen atom. J.Biol.Chem. (2025)
- Release Date
- 2025-06-11
- 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
- 15 x CU: COPPER (II) ION(Non-covalent)
- 3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
- 6 x NO2: NITRITE ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Fukuda, Y. et al., Structural basis of cuproenzyme nitrite reduction at the level of a single hydrogen atom. J.Biol.Chem. (2025)
- Release Date
- 2025-06-11
- Peptides
- Copper-containing nitrite reductase: ABC
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
AC
A