SMTL ID : 4az3.1

crystal structure of cathepsin a, complexed with 15a

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

hetero-1-1-mer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: N.119, T.121, E.122 Chain B: R.45, L.47 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 7 residues within 4Å: Chain A: P.79, D.80, G.257 Chain B: N.7, T.9, A.10, T.13 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.79

1 x S35: (3S)-3-({[1-(2-fluorophenyl)-5-{[(2R)-2-hydroxy-3,3-dimethylbutyl]oxy}-1H-pyrazol-3-yl]carbonyl}amino)-3-(2-methylphenyl)propanoic acid(Non-covalent)

S35.3: 16 residues within 4Å: Chain A: N.57, G.58, G.59, P.60, C.62, D.66, E.151, S.152, Y.249 Chain B: P.3, C.36, N.37, F.38, N.41, R.46, H.131 13 PLIP interactions: 8 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:D.66, A:Y.249, B:P.3, B:N.41 Hydrogen bonds: A:N.57, A:G.58, A:E.151, A:S.152, A:Y.249, B:N.41, B:R.46 Water bridges: A:G.59 Salt bridges: B:H.131

4 x CD: CADMIUM ION(Non-covalent)

CD.4: 2 residues within 4Å: Chain A: E.186 Ligands: CD.6 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.186 CD.5: 2 residues within 4Å: Chain A: H.213, D.227 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.213, A:D.227, A:D.227, H2O.9 CD.6: 3 residues within 4Å: Chain A: N.221, D.224 Ligands: CD.4 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.224, A:D.224 CD.7: 4 residues within 4Å: Chain A: L.182, N.188 Chain B: A.76, C.77 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:A.76, B:C.77, H2O.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ruf, S. et al., Novel Beta-Amino Acid Derivatives as Inhibitors of Cathepsin A. J.Med.Chem. (2012)

Release Date

2012-09-26

Peptides

LYSOSOMAL PROTECTIVE PROTEIN 32 KDA CHAIN: A
LYSOSOMAL PROTECTIVE PROTEIN 20 KDA CHAIN: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

LYSOSOMAL PROTECTIVE PROTEIN 32 KDA CHAIN

LYSOSOMAL PROTECTIVE PROTEIN 20 KDA CHAIN

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