ISDA

Deposition Date 2017-08-04

Release Date 2017-12-20

Last Version Date 2024-10-16

Entry Detail

PDB ID:

5QBV

Keywords:

HYDROLASE

Title:

Crystal structure of human Cathepsin-S with bound ligand

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Spodoptera frugiperda

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.80 Å

R-Value Free:

0.17

R-Value Work:

0.14

R-Value Observed:

0.14

Space Group:

C 1 2 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Cathepsin S
Gene (Uniprot):CTSS
Mutations:C139S
Chain IDs:A, B
Chain Length:223
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:P25774 Pfam ID:PF00112 EC:3.4.22.27

Ligand Molecules

N2D

Primary Citation

Diazinones as P2 replacements for pyrazole-based cathepsin S inhibitors

Ameriks, M.K, Bembenek, S.D, Burdett, M.T, Choong, I.C, Edwards, J.P, Gebauer, D, Gu, Y, Karlsson, L, Purkey, H.E, Staker, B.L, Sun, S, Thurmond, R.L, Zhu, J.Show

Bioorg.Med.Chem.Lett. 20 4060 4064 (2010)

PMID: 20541404 DOI: 10.1016/j.bmcl.2010.05.086

Abstact

A pyridazin-4-one fragment 4 (hCatS IC(50)=170 microM) discovered through Tethering was modeled into cathepsin S and predicted to overlap in S2 with the tetrahydropyridinepyrazole core of a previously disclosed series of CatS inhibitors. This fragment served as a template to design pyridazin-3-one 12 (hCatS IC(50)=430 nM), which also incorporates P3 and P5 binding elements. A crystal structure of 12 bound to Cys25Ser CatS led to the synthesis of the potent diazinone isomers 22 (hCatS IC(50)=60 nM) and 27 (hCatS IC(50)=40 nM).

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Chemical

Disease

Primary Citation of related structures