- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-dimer
- Ligands
- 5 x NAG- FUC- NAG: alpha-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Non-functional Binders)
- 2 x ZN: ZINC ION(Non-covalent)
ZN.6: 7 residues within 4Å:- Chain A: D.129, D.158, N.195, H.280, H.317
- Ligands: FE.7, 0LV.9
3 PLIP interactions:3 interactions with chain A- Metal complexes: A:D.158, A:H.280, A:H.317
ZN.20: 7 residues within 4Å:- Chain B: D.129, D.158, N.195, H.280, H.317
- Ligands: FE.21, 0LV.23
3 PLIP interactions:3 interactions with chain B- Metal complexes: B:D.158, B:H.280, B:H.317
- 2 x FE: FE (III) ION(Non-covalent)
FE.7: 7 residues within 4Å:- Chain A: D.129, D.158, Y.161, H.317, H.319
- Ligands: ZN.6, 0LV.9
4 PLIP interactions:4 interactions with chain A- Metal complexes: A:D.129, A:D.158, A:Y.161, A:H.319
FE.21: 8 residues within 4Å:- Chain B: D.129, D.158, Y.161, H.196, H.317, H.319
- Ligands: ZN.20, 0LV.23
4 PLIP interactions:4 interactions with chain B- Metal complexes: B:D.129, B:D.158, B:Y.161, B:H.319
- 2 x GOL: GLYCEROL(Non-functional Binders)
GOL.8: 7 residues within 4Å:- Chain A: R.298, T.299, N.329, I.330, A.331, Y.332
- Chain B: M.292
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:R.298, A:R.298, A:T.299, A:I.330, A:Y.332
GOL.22: 3 residues within 4Å:- Chain B: K.307, Y.308, K.309
No protein-ligand interaction detected (PLIP)- 2 x 0LV: (2,2-dimethyl-2,3-dihydro-1-benzofuran-7-yl)methanol(Non-covalent)
0LV.9: 12 residues within 4Å:- Chain A: D.158, Y.161, N.195, H.196, H.289, H.290, H.317, H.319, Y.359
- Chain B: R.252
- Ligands: ZN.6, FE.7
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:Y.161
- Hydrogen bonds: A:Y.359
- pi-Stacking: A:H.196
0LV.23: 11 residues within 4Å:- Chain A: R.252
- Chain B: D.158, Y.161, N.195, H.196, H.290, H.317, H.319, Y.359
- Ligands: ZN.20, FE.21
3 PLIP interactions:3 interactions with chain B- Hydrophobic interactions: B:Y.161
- Hydrogen bonds: B:Y.359
- pi-Stacking: B:H.196
- 10 x SO4: SULFATE ION(Non-functional Binders)
SO4.10: 3 residues within 4Å:- Chain A: N.58, G.59, R.60
1 PLIP interactions:1 interactions with chain A- Salt bridges: A:R.60
SO4.11: 4 residues within 4Å:- Chain A: S.69, S.214, Y.215, H.218
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:S.69, A:Y.215
- Salt bridges: A:H.218
SO4.12: 4 residues within 4Å:- Chain A: N.2, R.164, Y.165, P.166
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:N.2, A:N.2, A:R.164
SO4.13: 5 residues within 4Å:- Chain A: S.55, N.58, R.62, K.90, Y.95
6 PLIP interactions:6 interactions with chain A- Hydrogen bonds: A:S.55, A:N.58, A:Y.95
- Water bridges: A:S.55, A:S.55
- Salt bridges: A:R.62
SO4.14: 4 residues within 4Å:- Chain A: Q.370, A.375, F.376, R.377
5 PLIP interactions:5 interactions with chain A- Hydrogen bonds: A:Q.370, A:Q.370, A:R.377, A:R.377
- Water bridges: A:R.377
SO4.15: 3 residues within 4Å:- Chain A: K.268, R.269, S.270
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:R.269, A:S.270
- Salt bridges: A:H.418
SO4.24: 4 residues within 4Å:- Chain B: N.2, R.164, Y.165, P.166
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:R.164
SO4.25: 3 residues within 4Å:- Chain B: Q.370, F.376, R.377
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:Q.370, B:R.377
SO4.26: 9 residues within 4Å:- Chain B: N.19, T.42, G.47, S.48, G.100, L.101, R.102, N.103, T.104
8 PLIP interactions:8 interactions with chain B- Hydrogen bonds: B:N.19, B:S.48, B:S.48, B:R.102, B:N.103, B:N.103
- Water bridges: B:A.50, B:G.100
SO4.27: 4 residues within 4Å:- Chain B: V.267, K.268, R.269, S.270
4 PLIP interactions:4 interactions with chain B- Hydrogen bonds: B:R.269, B:S.270, B:S.270
- Salt bridges: B:K.268
- 1 x ACT: ACETATE ION(Non-functional Binders)
- 1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.18: 4 residues within 4Å:- Chain A: D.10, V.11, N.137, S.141
4 PLIP interactions:4 interactions with chain A- Hydrogen bonds: A:D.10, A:D.10, A:N.137, A:S.141
NAG.19: 2 residues within 4Å:- Chain B: N.75, N.167
2 PLIP interactions:2 interactions with chain B- Hydrogen bonds: B:N.75, B:N.167
NAG.28: 6 residues within 4Å:- Chain B: M.5, D.10, V.11, F.134, N.137, S.141
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:F.134
- Hydrogen bonds: B:D.10, B:D.10, B:N.137, B:S.141, B:S.141
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Feder, D. et al., Identification of purple acid phosphatase inhibitors by fragment-based screening: promising new leads for osteoporosis therapeutics. Chem.Biol.Drug Des. (2012)
- Release Date
- 2012-09-19
- Peptides
- Purple acid phosphatase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
D
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 2.70 Å
- Oligo State
- homo-dimer
- Ligands
- 5 x NAG- FUC- NAG: alpha-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]2-acetamido-2-deoxy-beta-D-glucopyranose(Non-covalent)(Non-functional Binders)
- 2 x ZN: ZINC ION(Non-covalent)
- 2 x FE: FE (III) ION(Non-covalent)
- 2 x GOL: GLYCEROL(Non-functional Binders)
- 2 x 0LV: (2,2-dimethyl-2,3-dihydro-1-benzofuran-7-yl)methanol(Non-covalent)
- 10 x SO4: SULFATE ION(Non-functional Binders)
- 1 x ACT: ACETATE ION(Non-functional Binders)
- 1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)
- 3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Feder, D. et al., Identification of purple acid phosphatase inhibitors by fragment-based screening: promising new leads for osteoporosis therapeutics. Chem.Biol.Drug Des. (2012)
- Release Date
- 2012-09-19
- Peptides
- Purple acid phosphatase: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
D