Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 59633.93 
• Atom Count: 3901 
• Residue Count: 510 
• Unique protein chains: 1

3H0E

3,4-Dihydropyrimido(1,2-a)indol-10(2H)-ones as Potent Non-Peptidic Inhibitors of Caspase-3

• DOI: 10.2210/pdb3H0E/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2009-04-09 Released: 2009-11-17 
• Deposition Author(s): Xu, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.997 Å
• R-Value Free: 0.200 
• R-Value Work: 0.177 

Literature

3,4-Dihydropyrimido(1,2-a)indol-10(2H)-ones as potent non-peptidic inhibitors of caspase-3

Havran, L.M., Chong, D.C., Childers, W.E., Dollings, P.J., Dietrich, A., Harrison, B.L., Marathias, V., Tawa, G., Aulabaugh, A., Cowling, R., Kapoor, B., Xu, W., Mosyak, L., Moy, F., Hum, W.T., Wood, A., Robichaud, A.J.

(2009) Bioorg.Med.Chem. 17: 7755-7768

• PubMed: 19836248 
• DOI: 10.1016/j.bmc.2009.09.036


• PubMed Abstract: 
  

Cysteine-dependant aspartyl protease (caspase) activation has been implicated as a part of the signal transduction pathway leading to apoptosis. It has been postulated that caspase-3 inhibition could attenuate cell damage after an ischemic event and thereby providing for a novel neuroprotective treatment for stroke. As part of a program to develop a small molecule inhibitor of caspase-3, a novel series of 3,4-dihydropyrimido(1,2-a)indol-10(2H)-ones (pyrimidoindolones) was identified. The synthesis, biological evaluation and structure-activity relationships of the pyrimidoindolones are described.

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Organizational Affiliation: 

Chemical Sciences, Wyeth Research, CN 8000, Princeton, NJ 08543, USA. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Caspase-3	A, B	255	Homo sapiens	Mutation(s): 0  Gene Names: CASP3 (CPP32) EC: 3.4.22.56
Find proteins for P42574 (Homo sapiens) Go to Gene View: CASP3 Go to UniProtKB:  P42574

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
H0E	A, B	(10S)-3,3-dimethyl-8-{[(2S)-2-(phenoxymethyl)pyrrolidin-1-yl]sulfonyl}-2,3,4,10-tetrahydropyrimido[1,2-a]indol-10-ol C24 H29 N3 O4 S RPXBZVLBDLIKLZ-JTSKRJEESA-N

External Ligand Annotations
ID	Binding Affinity (Sequence Identity %)
H0E	IC50: 7 nM PDBBIND

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.997 Å
• R-Value Free: 0.200 
• R-Value Work: 0.177 
• Space Group: C 1 2 1

Unit Cell:

Length (Å)	Angle (°)
a = 125.739	α = 90.00
b = 69.940	β = 130.08
c = 88.797	γ = 90.00

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
HKL-2000	data reduction
AMoRE	phasing
PHENIX	refinement
ADSC	data collection

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-04-09 
• Released Date: 2009-11-17 
• Deposition Author(s): Xu, W.

Revision History 

• Version 1.0: 2009-11-17
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Version format compliance