Literature DB >> 23020071

Global multi-method analysis of affinities and cooperativity in complex systems of macromolecular interactions.

Huaying Zhao1, Peter Schuck.   

Abstract

Cooperativity, multisite, and multicomponent interactions are hallmarks of biological systems of interacting macromolecules. Their thermodynamic characterization is often very challenging due to the notoriously low information content of binding isotherms. We introduce a strategy for the global multimethod analysis of data from multiple techniques (GMMA) that exploits enhanced information content emerging from the mutual constraints of the simultaneous modeling of orthogonal observables from calorimetric, spectroscopic, hydrodynamic, biosensing, or other thermodynamic binding experiments. We describe new approaches to address statistical problems that arise in the analysis of dissimilar data sets. The GMMA approach can significantly increase the complexity of interacting systems that can be accurately thermodynamically characterized.

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Year:  2012        PMID: 23020071      PMCID: PMC3491091          DOI: 10.1021/ac302357w

Source DB:  PubMed          Journal:  Anal Chem        ISSN: 0003-2700            Impact factor:   6.986


  29 in total

1.  kinITC: a new method for obtaining joint thermodynamic and kinetic data by isothermal titration calorimetry.

Authors:  Dominique Burnouf; Eric Ennifar; Sondes Guedich; Barbara Puffer; Guillaume Hoffmann; Guillaume Bec; François Disdier; Mireille Baltzinger; Philippe Dumas
Journal:  J Am Chem Soc       Date:  2011-12-16       Impact factor: 15.419

2.  Studying the allosteric energy cycle by isothermal titration calorimetry.

Authors:  Marta Martinez-Julvez; Olga Abian; Sonia Vega; Milagros Medina; Adrian Velazquez-Campoy
Journal:  Methods Mol Biol       Date:  2012

3.  High-precision isothermal titration calorimetry with automated peak-shape analysis.

Authors:  Sandro Keller; Carolyn Vargas; Huaying Zhao; Grzegorz Piszczek; Chad A Brautigam; Peter Schuck
Journal:  Anal Chem       Date:  2012-05-14       Impact factor: 6.986

Review 4.  The molecular sociology of the cell.

Authors:  Carol V Robinson; Andrej Sali; Wolfgang Baumeister
Journal:  Nature       Date:  2007-12-13       Impact factor: 49.962

5.  6-Carboxyfluorescein and structurally similar molecules inhibit DNA binding and repair by O⁶-alkylguanine DNA alkyltransferase.

Authors:  Manana Melikishvili; David W Rodgers; Michael G Fried
Journal:  DNA Repair (Amst)       Date:  2011-10-05

Review 6.  Noise in cellular signaling pathways: causes and effects.

Authors:  John E Ladbury; Stefan T Arold
Journal:  Trends Biochem Sci       Date:  2012-02-15       Impact factor: 13.807

7.  The boundary structure in the analysis of reversibly interacting systems by sedimentation velocity.

Authors:  Huaying Zhao; Andrea Balbo; Patrick H Brown; Peter Schuck
Journal:  Methods       Date:  2011-02-16       Impact factor: 3.608

8.  Direct interaction of the mouse cytomegalovirus m152/gp40 immunoevasin with RAE-1 isoforms.

Authors:  Li Zhi; Janet Mans; Michael J Paskow; Patrick H Brown; Peter Schuck; Stipan Jonjić; Kannan Natarajan; David H Margulies
Journal:  Biochemistry       Date:  2010-03-23       Impact factor: 3.162

Review 9.  Analysis of cooperativity by isothermal titration calorimetry.

Authors:  Alan Brown
Journal:  Int J Mol Sci       Date:  2009-08-04       Impact factor: 5.923

10.  Analysis of high-affinity assembly for AMPA receptor amino-terminal domains.

Authors:  Huaying Zhao; Anthony J Berger; Patrick H Brown; Janesh Kumar; Andrea Balbo; Carrie A May; Ernesto Casillas; Thomas M Laue; George H Patterson; Mark L Mayer; Peter Schuck
Journal:  J Gen Physiol       Date:  2012-04-16       Impact factor: 4.086

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  29 in total

1.  Use of fluorescence-detected sedimentation velocity to study high-affinity protein interactions.

Authors:  Sumit K Chaturvedi; Jia Ma; Huaying Zhao; Peter Schuck
Journal:  Nat Protoc       Date:  2017-08-03       Impact factor: 13.491

2.  Mechanistic Implications of the Unique Structural Features and Dimerization of the Cytoplasmic Domain of the Pseudomonas Sigma Regulator, PupR.

Authors:  Jaime L Jensen; Andrea Balbo; David B Neau; Srinivas Chakravarthy; Huaying Zhao; Sangita C Sinha; Christopher L Colbert
Journal:  Biochemistry       Date:  2015-09-14       Impact factor: 3.162

3.  Integration and global analysis of isothermal titration calorimetry data for studying macromolecular interactions.

Authors:  Chad A Brautigam; Huaying Zhao; Carolyn Vargas; Sandro Keller; Peter Schuck
Journal:  Nat Protoc       Date:  2016-04-07       Impact factor: 13.491

4.  Cooperative assembly of a four-molecule signaling complex formed upon T cell antigen receptor activation.

Authors:  Asit Manna; Huaying Zhao; Junya Wada; Lakshmi Balagopalan; Harichandra D Tagad; Ettore Appella; Peter Schuck; Lawrence E Samelson
Journal:  Proc Natl Acad Sci U S A       Date:  2018-12-03       Impact factor: 11.205

5.  Measuring the affinity of protein-protein interactions on a single-molecule level by mass photometry.

Authors:  Di Wu; Grzegorz Piszczek
Journal:  Anal Biochem       Date:  2020-01-07       Impact factor: 3.365

6.  Tubulin Dimer Reversible Dissociation: AFFINITY, KINETICS, AND DEMONSTRATION OF A STABLE MONOMER.

Authors:  Felipe Montecinos-Franjola; Peter Schuck; Dan L Sackett
Journal:  J Biol Chem       Date:  2016-03-02       Impact factor: 5.157

7.  Congratulations to Dr. Fumio Arisaka on his 70th birthday.

Authors:  Peter Schuck
Journal:  Biophys Rev       Date:  2018-02-06

8.  Fitting two- and three-site binding models to isothermal titration calorimetric data.

Authors:  Chad A Brautigam
Journal:  Methods       Date:  2014-12-05       Impact factor: 3.608

9.  On the acquisition and analysis of microscale thermophoresis data.

Authors:  Thomas H Scheuermann; Shae B Padrick; Kevin H Gardner; Chad A Brautigam
Journal:  Anal Biochem       Date:  2015-12-29       Impact factor: 3.365

10.  Overview of current methods in sedimentation velocity and sedimentation equilibrium analytical ultracentrifugation.

Authors:  Huaying Zhao; Chad A Brautigam; Rodolfo Ghirlando; Peter Schuck
Journal:  Curr Protoc Protein Sci       Date:  2013-02
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