PMID: 8589061Jan 1, 1995Paper

Principles of protein-protein recognition from structure to thermodynamics

Biochimie
J Janin

Abstract

Specific recognition is illustrated by X-ray structures of protease-inhibitor, antigen-antibody and other high affinity complexes including five electron transfer complexes. We attempt to give a physical definition to affinity and specificity on the basis of these data. In a protein-protein complex, specific recognition results from the assembly of complementary surfaces into well-packed interfaces that cover about 1500 A2 and contain about ten hydrogen bonds. These interfaces are larger than between molecules in protein crystals, and smaller than between subunits in oligomeric proteins. We relate the size and chemical nature of interfaces in complexes to the thermodynamical parameters that characterize affinity: the heat capacity and free enthalpy (Gibbs energy) of dissociation at equilibrium, the activation free enthalpy for the dissociation reaction. The same structural and thermodynamical parameters are inadequate for representing the specificity of recognition. We propose instead to describe specificity with the help of statistical physics, and we illustrate the application of the random energy model to antigen-antibody recognition by analyzing results of computer simulations by docking.

References

May 25, 1977·Journal of Molecular Biology·F C BernsteinM Tasumi
Aug 28, 1975·Nature·C Chothia, J Janin
Apr 5, 1992·Journal of Molecular Biology·P L Privalov, G I Makhatadze
Jan 1, 1992·Protein Science : a Publication of the Protein Society·N Horton, M Lewis
Nov 5, 1992·Journal of Molecular Biology·M P CrosioM Jullien
Jan 1, 1991·Proteins·J CherfilsJ Janin
Sep 20, 1991·Journal of Molecular Biology·T J RydelR Huber
Nov 1, 1987·Proceedings of the National Academy of Sciences of the United States of America·S SheriffD R Davies
Nov 1, 1989·Proceedings of the National Academy of Sciences of the United States of America·R S SpolarM T Record
Nov 5, 1988·Journal of Molecular Biology·J JaninC Chothia
Nov 1, 1987·Proceedings of the National Academy of Sciences of the United States of America·J D Bryngelson, P G Wolynes
Jan 16, 1986·Nature·D Eisenberg, A D McLachlan
Sep 15, 1973·Journal of Molecular Biology·A Shrake, J A Rupley
Feb 14, 1971·Journal of Molecular Biology·B Lee, F M Richards
Apr 1, 1994·Nature Structural Biology·M Totrov, R Abagyan
Jan 1, 1995·Proteins·J Janin
Jan 1, 1995·Progress in Biophysics and Molecular Biology·S Jones, J M Thornton
Aug 1, 1993·Proceedings of the National Academy of Sciences of the United States of America·E I Shakhnovich, A M Gutin
Dec 1, 1995·Proteins·J Janin, F Rodier
Jul 1, 1994·Acta Crystallographica. Section D, Biological Crystallography·M JullienS Baudet-Nessler

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Citations

Jun 1, 1997·Proteins·J Janin
Mar 1, 2002·Journal of Molecular Recognition : JMR·Claudia A LipschultzSandra J Smith-Gill
Dec 26, 2002·Journal of Molecular Recognition : JMR·A V VeselovskyP Janssen
Apr 12, 2002·Proteins·Pinak Chakrabarti, Joël Janin
Jan 6, 2000·Archives of Biochemistry and Biophysics·I A PikulevaY Kim
Dec 11, 2002·Biochemical Pharmacology·Thomas R Gadek, John B Nicholas
Mar 6, 1998·Trends in Biotechnology·P E Prevelige
Jun 19, 1998·Current Opinion in Structural Biology·M J SternbergR M Jackson
May 9, 2012·Biochemistry·Jordan D DimitrovSébastien Lacroix-Desmazes
Oct 24, 2012·Biochemistry·Eric S DayAdrian Whitty
Aug 26, 1998·Proceedings of the National Academy of Sciences of the United States of America·R TumaG J Thomas
Apr 2, 2011·The Journal of Biological Chemistry·Lubka T RoumeninaJordan D Dimitrov
Nov 8, 2001·Journal of Biomolecular Structure & Dynamics·L N Drozdov-TikhomirovG I Skurida
Sep 6, 2003·Journal of Biomolecular Structure & Dynamics·L N Drozdov-TikhomirovV Y Potapov
Mar 12, 2013·Bioinformatics·Zhiqiang YanJin Wang
Mar 29, 2001·Protein Science : a Publication of the Protein Society·S Elgavish, B Shaanan
Aug 31, 2013·PLoS Computational Biology·Eric T C WongJörg Gsponer
Feb 27, 2004·Cell Stress & Chaperones·Celia Harrison
Feb 26, 2010·Biological Chemistry·A Allart StoopCharles S Craik
Jan 15, 2014·Acta Crystallographica. Section D, Biological Crystallography·Sergei PletnevZbigniew Dauter
Mar 29, 2000·Journal of Molecular Graphics & Modelling·A Anderson, Z Weng
Dec 18, 2001·Journal of Molecular Recognition : JMR·S V Verevka, O S Miroshnychenko
Feb 18, 2016·Journal of Computer-aided Molecular Design·Zhiqiang Yan, Jin Wang
Feb 27, 2014·Journal of the American Chemical Society·Zhiming ChenTobias Baumgart
Jun 19, 2008·Autoimmunity Reviews·Jordan D DimitrovTchavdar L Vassilev
Jan 15, 2008·Trends in Immunology·Marcela Torres, Arturo Casadevall
Nov 14, 2006·Molecular Immunology·Jordan D DimitrovTchavdar L Vassilev
Oct 28, 2003·Proteins·Ranjit Prasad BahadurJoël Janin
Oct 31, 2012·Journal of Molecular Recognition : JMR·Jiří Kysilka, Jiří Vondrášek
Jun 19, 2013·Protein Science : a Publication of the Protein Society·Petras J Kundrotas, Ilya A Vakser

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