Cited by 196Computational Drug Discovery MethodsProtein Structure and DynamicsChemical Synthesis and Analysis

Systematic Analysis of Helical Protein Interfaces Reveals Targets for Synthetic Inhibitors

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Jochim, Andrea L., Arora, Paramjit S.·2010·ACS Chemical Biology

Abstract

Synthetic inhibitors of protein-protein interactions are being discovered despite the inherent challenge in targeting large contact surfaces with small molecules. An analysis of available examples identifies common features of complexes that make them tractable for small molecules. We deduced that relative disposition and energetic contributions of "hot spot" residues provide a predictive scale for the potential of protein-protein interactions to be inhibited by small molecules. On the basis of this model, we analyzed the full set of helical protein interfaces in the Protein Data Bank to identify those that are potentially suitable candidates for synthetic ligands.

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  1. [34]Henchey LK Kushal S Dubey R Chapman RN Olenyuk BZ Arora PS 2010 Inhibition of Hypoxia Inducible Factor 1–Transcription Coactivator Interaction by a Hydrogen Bond Surrogate Alpha-Helix J Am Chem Soc 132 941 943 20041650 PMC2810346

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Authors
Jochim, A. L., & Arora, P. S.
Affiliations
New York University (US)
Corresponding author
Arora, Paramjit S.
Venue
ACS Chemical Biology
Published
2010-08-25
Volume
5
Issue
10
Pages
919-923
ISSN
  • 1554-8929 (ISSN-L)
  • 1554-8937
OpenAlex
W2041008131
Cited by
191
References
34
Citations by year
2026: 2 · 2025: 5 · 2024: 10 · 2023: 8 · 2022: 15 · 2021: 13 · 2020: 14 · 2019: 9 · 2018: 10 · 2017: 15 · 2016: 14 · 2015: 10 · 2014: 21 · 2013: 20 · 2012: 12
FWCI
14.73
Type
journal article
Language
en
Open access
Locations
  • ACS Chemical Biology (publishedVersion)
  • PubMed (publishedVersion)
  • Europe PMC (PubMed Central) (acceptedVersion)
  • PubMed Central (acceptedVersion)
Funders
National Institute of General Medical Sciences (GM 073943, R01GM073943)
Topics
  • Physical Sciences › Computer Science › Computational Theory and Mathematics › Computational Drug Discovery Methods
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Chemical Synthesis and Analysis
Keywords
protein-protein interaction, synthetic inhibitors, hot spot residues, small molecule inhibitors, ligand binding prediction, Protein Data Bank
MeSH terms
Animals, Binding Sites, Humans, Models, Molecular, Protein Binding, Proteins, Thermodynamics, Protein Structure, Secondary, Databases, Protein, Small Molecule Libraries

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