1AU0

CRYSTAL STRUCTURE OF THE CYSTEINE PROTEASE HUMAN CATHEPSIN K IN COMPLEX WITH A COVALENT SYMMETRIC DIACYLAMINOMETHYL KETONE INHIBITOR

• PDB DOI: https://doi.org/10.2210/pdb1AU0/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 1997-09-09 Released: 1998-10-14 
• Deposition Author(s): Zhao, B., Smith, W.W., Janson, C.A., Abdel-Meguid, S.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.365 
• R-Value Work: 0.217 
• R-Value Observed: 0.217 

Starting Model: experimental

Literature

Structure and Design of Potent and Selective Cathepsin K Inhibitors

Yamashita, D.S., Smith, W.W., Zhao, B., Janson, C.A., Tomaszek, T.A., Bossard, M.J., Levy, M.A., Oh, H.-J., Carr, T.J., Thompson, S.K., Ijames, C.F., Carr, S.A., Mcqueney, M., D'Alessio, K.J., Amegadzie, B.Y., Hanning, C.R., Abdel-Meguid, S., Desjarlais, R.L., Gleason, J.G., Veber, D.F.

(1997) J Am Chem Soc 119: 11351-11352

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 24.11 kDa 
• Atom Count: 1,756 
• Modelled Residue Count: 215 
• Deposited Residue Count: 215 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CATHEPSIN K	A	215	Homo sapiens	Mutation(s): 0  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

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SDK	B [auth A]	1,3-BIS[[N-[(PHENYLMETHOXY)CARBONYL]-L-LEUCYL]AMINO]-2-PROPANONE C31 H42 N4 O7 APGQPPIXNOCMOK-SVBPBHIXSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
SDK	BindingDB:  1AU0	Ki: 22 (nM) from 1 assay(s)
	PDBBind:  1AU0	Ki: 22 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Free: 0.365 
• R-Value Work: 0.217 
• R-Value Observed: 0.217 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.75	α = 90
b = 57.75	β = 90
c = 131.12	γ = 90

Software Package:

Software Name	Purpose
XENGEN	data collection
XENGEN	data reduction
X-PLOR	model building
X-PLOR	refinement
XENGEN	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-10-14 
Deposition Author(s): Zhao, B., Smith, W.W., Janson, C.A., Abdel-Meguid, S.S.

Revision History  

• Version 1.0: 1998-10-14
  Type: Initial release
  
• Version 1.1: 2008-03-03
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-03-07
  Changes: Data collection, Other
• Version 1.4: 2023-08-02
  Changes: Database references, Derived calculations, Refinement description
• Version 1.5: 2024-10-30
  Changes: Data collection, Structure summary