4PS1

Caspase-8 specific unnatural amino acid peptides

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.731 Å
  • R-Value Free: 0.185 
  • R-Value Work: 0.152 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history. 

Literature

Selective inhibition of initiator versus executioner caspases using small peptides containing unnatural amino acids.

Vickers, C.J., Gonzalez-Paez, G.E., Litwin, K.M., Umotoy, J.C., Coutsias, E.A., Wolan, D.W.

(2014) Acs Chem.Biol. 9: 2194-2198

  • DOI: 10.1021/cb5004256
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    • Caspases are fundamental to many essential biological processes, including apoptosis, differentiation, and inflammation. Unregulated caspase activity is also implicated in the development and progression of several diseases, such as cancer, neurodege ...

    Caspases are fundamental to many essential biological processes, including apoptosis, differentiation, and inflammation. Unregulated caspase activity is also implicated in the development and progression of several diseases, such as cancer, neurodegenerative disorders, and sepsis. Unfortunately, it is difficult to determine exactly which caspase(s) of the 11 isoforms that humans express is responsible for specific biological functions. This lack of resolution is primarily due to highly homologous active sites and overlapping substrates. Currently available peptide-based inhibitors and probes are based on specificity garnered from peptide substrate libraries. For example, the canonical tetrapeptide LETD was discovered as the canonical sequence that is optimally recognized by caspase-8; however, LETD-based inhibitors and substrates promiscuously bind to other isoforms with equal affinity, including caspases-3, -6, and -9. In order to mitigate this problem, we report the identification of a new series of compounds that are >100-fold selective for inhibiting the initiator caspases-8 and -9 over the executioner caspases-3, -6, and -7.

    Organizational Affiliation: 

    Departments of Molecular and Experimental Medicine and Chemical Physiology, The Scripps Research Institute , La Jolla, California 92037, United States.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Caspase-8
A, B, C, D
275Homo sapiensMutation(s): 0 
Gene Names: CASP8 (MCH5)
EC: 3.4.22.61
Find proteins for Q14790 (Homo sapiens)
Go to Gene View: CASP8
Go to UniProtKB:  Q14790
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
(BAL)LQ(HYP)(1U8) PEPTIDE
E, F, G, H
5N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DTT
Query on DTT
Download SDF File 
Download CCD File 
A, B, C, D
2,3-DIHYDROXY-1,4-DITHIOBUTANE
1,4-DITHIOTHREITOL
C4 H10 O2 S2
VHJLVAABSRFDPM-IMJSIDKUSA-N
 Ligand Interaction
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
BAL
Query on BAL
E, F, G, H
peptide-likeC3 H7 N O2

--

1U8
Query on 1U8
E, F, G, H
L-PEPTIDE LINKINGC14 H17 N O5

--

HYP
Query on HYP
E, F, G, H
L-PEPTIDE LINKINGC5 H9 N O3PRO
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.731 Å
  • R-Value Free: 0.185 
  • R-Value Work: 0.152 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 115.870α = 90.00
b = 144.603β = 123.86
c = 86.193γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data scaling
SOLVEphasing
PHENIXrefinement
HKL-2000data collection

Structure Validation

View Full Validation Report or Ramachandran Plots


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-01-21
    Type: Initial release