- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.98 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x 6KZ: N-[(2S)-4-methyl-1-oxidanylidene-1-[[(1R,2S)-1-oxidanyl-1-(5-phenyl-1,2,4-oxadiazol-3-yl)butan-2-yl]amino]pentan-2-yl]morpholine-4-carboxamide(Covalent)
6KZ.1: 15 residues within 4Å:- Chain A: G.58, G.59, P.60, C.62, S.152, Y.153, Y.249, P.303, T.306, M.335, N.341, C.377, H.431, M.432
- Ligands: CD.6
11 PLIP interactions:11 interactions with chain A- Hydrophobic interactions: A:P.303, A:T.306
- Hydrogen bonds: A:G.58, A:G.59, A:G.59, A:G.59, A:Y.153, A:Y.249, A:Y.249
- Water bridges: A:E.151
- pi-Stacking: A:Y.249
6KZ.11: 15 residues within 4Å:- Chain B: G.58, G.59, P.60, C.62, S.152, Y.153, Y.249, P.303, T.306, M.335, N.341, C.377, H.431, M.432
- Ligands: CD.16
9 PLIP interactions:9 interactions with chain B- Hydrophobic interactions: B:P.303, B:T.306
- Hydrogen bonds: B:G.58, B:G.59, B:G.59, B:G.59, B:Y.153, B:Y.249
- pi-Stacking: B:Y.249
- 14 x CD: CADMIUM ION(Non-covalent)
CD.2: 2 residues within 4Å:- Chain A: N.250, D.436
4 PLIP interactions:2 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:D.436, A:D.436, H2O.9, H2O.9
CD.3: 2 residues within 4Å:- Chain A: E.186
- Ligands: CD.5
3 PLIP interactions:1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:E.186, H2O.7, H2O.7
CD.4: 3 residues within 4Å:- Chain A: T.212, H.213, D.227
2 PLIP interactions:1 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:H.213, H2O.14
CD.5: 3 residues within 4Å:- Chain A: N.221, D.224
- Ligands: CD.3
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:D.224, A:D.224
CD.6: 5 residues within 4Å:- Chain A: L.182, N.188, A.376, C.377
- Ligands: 6KZ.1
2 PLIP interactions:2 interactions with chain A- Metal complexes: A:A.376, A:C.377
CD.7: 5 residues within 4Å:- Chain A: G.181, L.182, S.183, N.188, D.382
3 PLIP interactions:1 interactions with chain A, 2 Ligand-Water interactions- Metal complexes: A:G.181, H2O.7, H2O.7
CD.8: 1 residues within 4Å:- Chain A: D.5
2 PLIP interactions:1 interactions with chain A, 1 Ligand-Water interactions- Metal complexes: A:D.5, H2O.1
CD.12: 2 residues within 4Å:- Chain B: N.250, D.436
4 PLIP interactions:2 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:D.436, B:D.436, H2O.23, H2O.23
CD.13: 2 residues within 4Å:- Chain B: E.186
- Ligands: CD.15
3 PLIP interactions:1 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:E.186, H2O.20, H2O.21
CD.14: 3 residues within 4Å:- Chain B: T.212, H.213, D.227
2 PLIP interactions:1 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:H.213, H2O.28
CD.15: 3 residues within 4Å:- Chain B: N.221, D.224
- Ligands: CD.13
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:D.224, B:D.224
CD.16: 5 residues within 4Å:- Chain B: L.182, N.188, A.376, C.377
- Ligands: 6KZ.11
2 PLIP interactions:2 interactions with chain B- Metal complexes: B:A.376, B:C.377
CD.17: 5 residues within 4Å:- Chain B: G.181, L.182, S.183, N.188, D.382
3 PLIP interactions:1 interactions with chain B, 2 Ligand-Water interactions- Metal complexes: B:G.181, H2O.20, H2O.21
CD.18: 1 residues within 4Å:- Chain B: D.5
2 PLIP interactions:1 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:D.5, H2O.14
- 4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
NAG.9: 5 residues within 4Å:- Chain A: N.119, T.121, E.122, R.345, L.347
6 PLIP interactions:6 interactions with chain A- Hydrophobic interactions: A:L.347
- Hydrogen bonds: A:N.119, A:E.122
- Water bridges: A:T.121, A:T.121, A:R.345
NAG.10: 3 residues within 4Å:- Chain A: P.79, N.307, T.309
3 PLIP interactions:3 interactions with chain A- Hydrogen bonds: A:P.79
- Water bridges: A:N.307, A:A.310
NAG.19: 5 residues within 4Å:- Chain B: N.119, T.121, E.122, R.345, L.347
6 PLIP interactions:6 interactions with chain B- Hydrophobic interactions: B:L.347
- Hydrogen bonds: B:N.119, B:E.122
- Water bridges: B:T.121, B:T.121, B:R.345
NAG.20: 3 residues within 4Å:- Chain B: P.79, N.307, T.309
3 PLIP interactions:3 interactions with chain B- Hydrogen bonds: B:P.79
- Water bridges: B:N.307, B:A.310
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Schreuder, H.A. et al., Crystal structure of cathepsin A, a novel target for the treatment of cardiovascular diseases. Biochem. Biophys. Res. Commun. (2014)
- Release Date
- 2014-02-26
- Peptides
- LYSOSOMAL PROTECTIVE PROTEIN: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.98 Å
- Oligo State
- homo-dimer
- Ligands
- 2 x 6KZ: N-[(2S)-4-methyl-1-oxidanylidene-1-[[(1R,2S)-1-oxidanyl-1-(5-phenyl-1,2,4-oxadiazol-3-yl)butan-2-yl]amino]pentan-2-yl]morpholine-4-carboxamide(Covalent)
- 14 x CD: CADMIUM ION(Non-covalent)
- 4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Schreuder, H.A. et al., Crystal structure of cathepsin A, a novel target for the treatment of cardiovascular diseases. Biochem. Biophys. Res. Commun. (2014)
- Release Date
- 2014-02-26
- Peptides
- LYSOSOMAL PROTECTIVE PROTEIN: AB
- SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AB
A