- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.89 Å
- Oligo State
- monomer
- Ligands
- 1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 1 x CA: CALCIUM ION(Non-covalent)
- 22 x IOD: IODIDE ION(Non-functional Binders)
- 3 x SCN: THIOCYANATE ION(Non-functional Binders)
SCN.12: 5 residues within 4Å:- Chain A: N.230, P.236, C.248, F.254, F.381
No protein-ligand interaction detected (PLIP)SCN.18: 4 residues within 4Å:- Chain A: I.24, P.197, R.204
- Ligands: EDO.16
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.204
SCN.19: 3 residues within 4Å:- Chain A: H.377, T.378
- Ligands: IOD.31
No protein-ligand interaction detected (PLIP)- 3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.13: 5 residues within 4Å:- Chain A: L.224, A.225, R.271, N.274, R.278
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.274, A:R.278, A:R.278
- Water bridges: A:R.275
EDO.14: 4 residues within 4Å:- Chain A: N.450, S.451, Q.460, D.488
4 PLIP interactions:4 interactions with chain A- Water bridges: A:N.68, A:S.451, A:S.451, A:D.488
EDO.16: 6 residues within 4Å:- Chain A: V.13, T.23, I.24, T.25, P.197
- Ligands: SCN.18
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:I.24, A:T.25
- 1 x NO2: NITRITE ION(Non-covalent)
- 1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)
HEM.17: 23 residues within 4Å:- Chain A: M.101, G.104, Q.105, D.108, H.109, D.112, R.255, E.258, Q.259, T.344, F.347, R.348, G.350, H.351, V.354, F.380, L.417, Q.423, L.433, I.436, R.440
- Ligands: NO2.15, IOD.20
24 PLIP interactions:24 interactions with chain A,- Hydrophobic interactions: A:Q.105, A:D.108, A:E.258, A:Q.259, A:F.347, A:F.347, A:R.348, A:V.354, A:V.354, A:F.380, A:L.417, A:L.433, A:L.433, A:I.436
- Water bridges: A:E.116, A:R.255, A:R.348, A:Q.423, A:R.440
- Salt bridges: A:H.109, A:R.255, A:R.348, A:R.440
- Metal complexes: A:H.351
- 1 x ZN: ZINC ION(Non-covalent)
- 3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.34: 4 residues within 4Å:- Chain A: N.95, R.96, I.315, Q.568
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.96
- Water bridges: A:N.95
NAG.35: 4 residues within 4Å:- Chain A: N.241, A.244, W.384, K.388
No protein-ligand interaction detected (PLIP)NAG.36: 3 residues within 4Å:- Chain A: N.332, S.334, V.335
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:N.332
- Water bridges: A:N.332
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Viswanathan, V. et al., Structural evidence of the conversion of nitric oxide (NO) to nitrite ion (NO2-) by lactoperoxidase (LPO): Structure of the complex of LPO with NO2- at 1.89 angstrom resolution. J.Inorg.Biochem. (2023)
- Release Date
- 2023-01-11
- Peptides
- Lactoperoxidase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.89 Å
- Oligo State
- monomer
- Ligands
- 1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 1 x CA: CALCIUM ION(Non-covalent)
- 22 x IOD: IODIDE ION(Non-functional Binders)
- 3 x SCN: THIOCYANATE ION(Non-functional Binders)
- 3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x NO2: NITRITE ION(Non-covalent)
- 1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)
- 1 x ZN: ZINC ION(Non-covalent)
- 3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Viswanathan, V. et al., Structural evidence of the conversion of nitric oxide (NO) to nitrite ion (NO2-) by lactoperoxidase (LPO): Structure of the complex of LPO with NO2- at 1.89 angstrom resolution. J.Inorg.Biochem. (2023)
- Release Date
- 2023-01-11
- Peptides
- Lactoperoxidase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A