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- Biological Assembly 1 (CIF - gz)
- Biological Assembly 1 (PDB - gz)
1SNK|pdb_00001snk
Cathepsin K complexed with carbamate derivatized norleucine aldehyde
- PDB DOI: https://doi.org/10.2210/pdb1SNK/pdb
- Classification: HYDROLASE
- Organism(s): Homo sapiens
- Expression System: Spodoptera frugiperda
- Mutation(s): No
- Deposited: 2004-03-11 Released: 2004-06-22
- Deposition Author(s): Boros, E.E.,Deaton, D.N.,Hassell, A.M.,McFadyen, R.B.,Miller, A.B.,Miller, L.R.,Shewchuk, L.M.,Thompson, J.B.,Willard Jr., D.H.,Wright, L.L.
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.286 (Depositor)
- R-Value Work: 0.208 (Depositor), 0.210 (DCC)
- R-Value Observed: 0.208 (Depositor)
Starting Model:experimental
View more details
Download MendeleyExploration of the P(2)-P(3) SAR of aldehyde cathepsin K inhibitors
Boros, E.E., Deaton, D.N., Hassell, A.M., McFadyen, R.B., Miller, A.B., Miller, L.R., Paulick, M.G., Shewchuk, L.M., Thompson, J.B., Willard Jr., D.H., Wright, L.L.(2004) Bioorg Med Chem Lett 14: 3425-3429
- PubMed: 15177446 Search on PubMed
- DOI: https://doi.org/10.1016/j.bmcl.2004.04.084
- Primary Citation of Related Structures:
1SNK - PubMed Abstract:
The synthesis and biological activity of a series of aldehyde inhibitors of cathepsin K are reported. Exploration of the properties of the S2 and S3 subsites with a series of carbamate derivatized norleucine aldehydes substituted at the P2 and P3 positions afforded analogs with cathepsin K IC50s between 600 nM and 130 pM.
Organizational Affiliation:
Department of Medicinal Chemistry, GlaxoSmithKline, Five Moore Drive, Research Triangle Park, NC 27709-3398, USA.
Explore in 3D: Structure |Sequence Annotations |Electron Density |Validation Report |Ligand Interaction (MYE)
Global Symmetry: Asymmetric - C1
Global Stoichiometry: Monomer - A1
Find Similar Assemblies
Biological assembly 1 assigned by authors.
Macromolecule Content
- Total Structure Weight: 24.18 kDa
- Atom Count: 1,789
- Modelled Residue Count: 214
- Deposited Residue Count: 214
- Unique protein chains: 1
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Cathepsin K | 214 | Homo sapiens | Mutation(s): 0 Gene Names: CTSK, CTSO, CTSO2 EC: 3.4.22.38 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P43235 (Homo sapiens) Explore P43235 Go to UniProtKB: P43235 | |||||
PHAROS: P43235 GTEx: ENSG00000143387 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P43235 | ||||
Sequence AnnotationsExpand | |||||
| |||||
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| MYE Query on MYE Download Ideal Coordinates CCD File | E [auth A] | N2-({[(4-BROMOPHENYL)METHYL]OXY}CARBONYL)-N1-[(1S)-1-FORMYLPENTYL]-L-LEUCINAMIDE C20 H29 Br N2 O4 UEDKSAKLZBMNMA-ROUUACIJSA-N |  | ||
| SO4 Query on SO4 Download Ideal Coordinates CCD File | B [auth A], C [auth A], D [auth A] | SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L |  | ||
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.40 Å
- R-Value Free: 0.286 (Depositor)
- R-Value Work: 0.208 (Depositor), 0.210 (DCC)
- R-Value Observed: 0.208 (Depositor)
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 62.073 | α = 90 |
| b = 62.073 | β = 90 |
| c = 113.378 | γ = 90 |
| Software Name | Purpose |
|---|---|
| SCALEPACK | data scaling |
| X-PLOR | model building |
| CNS | refinement |
| X-PLOR | phasing |
Deposition Data
- Released Date: 2004-06-22 Deposition Author(s): Boros, E.E.,Deaton, D.N.,Hassell, A.M.,McFadyen, R.B.,Miller, A.B.,Miller, L.R.,Shewchuk, L.M.,Thompson, J.B.,Willard Jr., D.H.,Wright, L.L.
Revision History (Full details and data files)
- Version 1.0: 2004-06-22
Type: Initial release - Version 1.1: 2008-04-29
Changes: Version format compliance - Version 1.2: 2011-07-13
Changes: Version format compliance - Version 1.3: 2017-10-11
Changes: Refinement description - Version 1.4: 2023-08-23
Changes: Data collection, Database references, Derived calculations, Refinement description - Version 1.5: 2024-10-30
Changes: Structure summary
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