- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.79 Å
- Oligo State
- monomer
- Ligands
- 3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)
HEM.4: 25 residues within 4Å:- Chain A: M.101, G.104, Q.105, D.108, D.112, F.113, A.114, R.255, E.258, Q.259, T.344, F.347, R.348, G.350, H.351, V.354, L.376, F.380, L.417, Q.423, L.433, I.436, R.440
- Ligands: PEO.18, OSM.22
26 PLIP interactions:26 interactions with chain A,- Hydrophobic interactions: A:Q.105, A:Q.105, A:E.258, A:Q.259, A:F.347, A:F.347, A:R.348, A:V.354, A:V.354, A:L.376, A:F.380, A:L.417, A:L.433, A:L.433, A:I.436
- Hydrogen bonds: A:D.112, A:A.114
- Water bridges: A:F.113, A:R.255, A:R.348, A:R.348, A:R.348, A:R.348
- Salt bridges: A:R.348, A:R.440
- Metal complexes: A:H.351
- 1 x CA: CALCIUM ION(Non-covalent)
- 12 x IOD: IODIDE ION(Non-functional Binders)
IOD.6: 7 residues within 4Å:- Chain A: A.44, R.45, W.46, N.341, V.342, W.452
- Ligands: SCN.31
Ligand excluded by PLIPIOD.7: 4 residues within 4Å:- Chain A: N.216, Q.217, F.229
- Ligands: SCN.36
Ligand excluded by PLIPIOD.8: 3 residues within 4Å:- Chain A: N.80, P.145
- Ligands: SCN.35
Ligand excluded by PLIPIOD.9: 4 residues within 4Å:- Chain A: P.236, F.239, T.425
- Ligands: SCN.30
Ligand excluded by PLIPIOD.10: 3 residues within 4Å:- Chain A: R.31, Y.331, N.333
Ligand excluded by PLIPIOD.14: 2 residues within 4Å:- Chain A: W.46, P.48
Ligand excluded by PLIPIOD.15: 2 residues within 4Å:- Chain A: L.86, D.87
Ligand excluded by PLIPIOD.16: 4 residues within 4Å:- Chain A: E.363, R.397, T.560
- Ligands: SCN.34
Ligand excluded by PLIPIOD.17: 3 residues within 4Å:- Chain A: F.309, W.530
- Ligands: SCN.33
Ligand excluded by PLIPIOD.19: 1 residues within 4Å:- Chain A: T.66
Ligand excluded by PLIPIOD.20: 2 residues within 4Å:- Chain A: S.198
- Ligands: SCN.32
Ligand excluded by PLIPIOD.21: 3 residues within 4Å:- Chain A: Q.409, N.410, N.473
Ligand excluded by PLIP- 4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
EDO.11: 4 residues within 4Å:- Chain A: A.35, L.36, R.41, R.338
3 PLIP interactions:3 interactions with chain A- Water bridges: A:G.37, A:A.42, A:A.42
EDO.12: 4 residues within 4Å:- Chain A: I.24, P.197, A.200, S.201
1 PLIP interactions:1 interactions with chain A- Water bridges: A:I.24
EDO.13: 6 residues within 4Å:- Chain A: S.359, L.361, P.367, A.372, E.373, K.402
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:K.402
EDO.37: 6 residues within 4Å:- Chain A: L.224, A.225, R.271, N.274, R.275, R.278
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:A.225, A:R.271, A:R.275, A:R.278
- Water bridges: A:G.223
- 1 x PEO: HYDROGEN PEROXIDE(Non-functional Binders)
- 8 x OSM: 1-(OXIDOSULFANYL)METHANAMINE(Non-covalent)
OSM.22: 6 residues within 4Å:- Chain A: H.109, R.255, E.258, F.381
- Ligands: HEM.4, PEO.18
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.105
- Water bridges: A:R.255
OSM.23: 1 residues within 4Å:- Chain A: L.12
No protein-ligand interaction detected (PLIP)OSM.24: 3 residues within 4Å:- Chain A: H.377, T.378, H.429
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:H.377
OSM.25: 1 residues within 4Å:- Chain A: R.541
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:R.541
OSM.26: 6 residues within 4Å:- Chain A: D.311, H.565, A.566, F.567, Q.568
- Ligands: NAG.1
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:A.566
- Water bridges: A:R.310, A:F.549
OSM.27: 4 residues within 4Å:- Chain A: R.76, P.149, K.150, N.419
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:K.150
- Water bridges: A:P.149, A:R.418
OSM.28: 5 residues within 4Å:- Chain A: E.218, A.219, F.229, H.245, V.246
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:E.218
OSM.29: 5 residues within 4Å:- Chain A: N.95, R.96, R.504, R.506
- Ligands: NAG.1
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:N.95, A:R.96, A:R.96, A:R.506
- 7 x SCN: THIOCYANATE ION(Non-functional Binders)
SCN.30: 6 residues within 4Å:- Chain A: P.234, S.235, P.236, P.424, T.425
- Ligands: IOD.9
No protein-ligand interaction detected (PLIP)SCN.31: 9 residues within 4Å:- Chain A: A.44, R.45, W.46, S.340, N.341, V.342, M.446, W.452
- Ligands: IOD.6
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:R.45, A:V.342
SCN.32: 4 residues within 4Å:- Chain A: E.196, P.197, S.198
- Ligands: IOD.20
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:S.198
SCN.33: 5 residues within 4Å:- Chain A: Q.305, I.306, F.309, W.530
- Ligands: IOD.17
No protein-ligand interaction detected (PLIP)SCN.34: 8 residues within 4Å:- Chain A: E.363, Y.365, R.397, H.558, V.559, T.560, K.561
- Ligands: IOD.16
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:T.560, A:K.561
SCN.35: 8 residues within 4Å:- Chain A: E.77, N.80, K.81, P.145, K.146, N.147, D.148
- Ligands: IOD.8
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:N.80
SCN.36: 6 residues within 4Å:- Chain A: V.215, N.216, Q.217, P.228, F.229
- Ligands: IOD.7
2 PLIP interactions:2 interactions with chain A- Hydrogen bonds: A:Q.217, A:F.229
- 1 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Viswanathan, V. et al., Crystal structure of the complex of goat lactoperoxidase with hypothiocyanite and hydrogen peroxide at 1.79 A resolution. To Be Published
- Release Date
- 2020-01-22
- Peptides
- Lactoperoxidase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.79 Å
- Oligo State
- monomer
- Ligands
- 3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- 1 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Covalent)
- 1 x CA: CALCIUM ION(Non-covalent)
- 12 x IOD: IODIDE ION(Non-functional Binders)
- 4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 1 x PEO: HYDROGEN PEROXIDE(Non-functional Binders)
- 8 x OSM: 1-(OXIDOSULFANYL)METHANAMINE(Non-covalent)
- 7 x SCN: THIOCYANATE ION(Non-functional Binders)
- 1 x GOL: GLYCEROL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Viswanathan, V. et al., Crystal structure of the complex of goat lactoperoxidase with hypothiocyanite and hydrogen peroxide at 1.79 A resolution. To Be Published
- Release Date
- 2020-01-22
- Peptides
- Lactoperoxidase: A
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
A