We have continued to expand the global multi-method analysis (GMMA) software SEDPHAT, which offers a variety of models and specific statistical functions for the analysis of multi-component interactions in a multi-method approach. This includes analytical ultracentrifugation (sedimentation velocity and sedimentation equilibrium), isothermal titration microcalorimetry, spectroscopic methods, and optical biosensing. Specifically, we have implemented visualization tools for all data types to show experimental data in a space of binding isotherms, or experimental observables, as a function of concentration. This can highlight the information content of data and help examining experimental design. Further, we have implemented extensive simulation tools that allow the investigator to explore whether the acquisition of data from a certain biophysical technique would be promising to aid in the characterization of the molecular parameter of interest. In order to disseminate this tool and facilitate its application by colleagues, we have held workshops at NIH in Bethesda, at the Dallas UT Southwestern Medical Center, and at the Medizinische Hochschule Hannover. This has generated positive feedback and software improvements. Experimentally, we have significantly extended the potential for GMMA with the development of fluorescence-detected sedimentation velocity (FDS-SV) method for the study of of high-affinity interactions. FDS-SV offers now a possibility to study of interactions with affinities in the low nM range, complementary to isothermal titration calorimetry and surface plasmon resonance biosensing.

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Project End
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Budget End
Support Year
8
Fiscal Year
2014
Total Cost
Indirect Cost
Name
Biomedical Imaging & Bioengineering
Department
Type
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Zhao, Huaying; Boyd, Lisa F; Schuck, Peter (2017) Measuring Protein Interactions by Optical Biosensors. Curr Protoc Protein Sci 88:20.2.1-20.2.25
Brautigam, Chad A; Zhao, Huaying; Vargas, Carolyn et al. (2016) Integration and global analysis of isothermal titration calorimetry data for studying macromolecular interactions. Nat Protoc 11:882-94
Chaires, Jonathan B; Hansen, Lee D; Keller, Sandro et al. (2015) Biocalorimetry. Methods 76:1-2
Zhao, Huaying; Piszczek, Grzegorz; Schuck, Peter (2015) SEDPHAT--a platform for global ITC analysis and global multi-method analysis of molecular interactions. Methods 76:137-148
Zhao, Huaying; Schuck, Peter (2015) Combining biophysical methods for the analysis of protein complex stoichiometry and affinity in SEDPHAT. Acta Crystallogr D Biol Crystallogr 71:3-14
Gustchina, Elena; Li, Mi; Ghirlando, Rodolfo et al. (2013) Complexes of neutralizing and non-neutralizing affinity matured Fabs with a mimetic of the internal trimeric coiled-coil of HIV-1 gp41. PLoS One 8:e78187
Keller, Sandro; Vargas, Carolyn; Zhao, Huaying et al. (2012) High-precision isothermal titration calorimetry with automated peak-shape analysis. Anal Chem 84:5066-73
Coussens, Nathan P; Schuck, Peter; Zhao, Huaying (2012) Strategies for assessing proton linkage to bimolecular interactions by global analysis of isothermal titration calorimetry data. J Chem Thermodyn 52:95-107
Zhao, Huaying; Schuck, Peter (2012) Global multi-method analysis of affinities and cooperativity in complex systems of macromolecular interactions. Anal Chem 84:9513-9
Gondeau, Claire; Corradin, Giampietro; Heitz, Frédéric et al. (2009) The C-terminal domain of Plasmodium falciparum merozoite surface protein 3 self-assembles into alpha-helical coiled coil tetramer. Mol Biochem Parasitol 165:153-61