Abstract

It has been a dream that theoretical biology can be extensively applied in experimental biology to accelerate the understanding of the sophiscated movements in living organisms. A brave assay and an excellent example were represented by enzymology, in which the well-established physico-chemistry is used to describe, to fit, to predict and to improve enzyme reactions. Before the modern bioinformatics, the developments of the combination of theoretical biology and experimental biology have been mainly limited to various classic formulations. The systematic use of graphic rules by Prof. Kuo-Chen Chou and his co-workers has significantly facilitated to deal with complicated enzyme systems. With the recent fast progress of bioinformatics, prediction of protein structures and various protein attributes have been well established by Chou and co-workers, stimulating the experimental biology. For example, their recent method for predicting protein subcellular localization (one of the important attributes of proteins) has been extensively applied by scientific colleagues, yielding many new results with thousands of citations. The research by Prof. Chou is characterized by introducing novel physical concepts as well as powerful and elegant mathematical methods into important biomedical problems, a focus throughout his career, even when facing enormous difficulties. His efforts in 50 years have greatly helped us to realize the dream to make “theoretical and experimental biology in one”. Prof. Richard Giege is well known for his multi-disciplinary research combining physics, chemistry, enzymology and molecular biology. His major focus of study is on the identity of tRNAs and their interactions with aminoacyl-tRNA synthetases (aaRS), which are of critical importance to the fidelity of protein biosynthesis. He and his colleagues have carried out the first crystallization of a tRNA/aaRS complex, that between tRNAAsp and AspRS from yeast. The determination of the complex structure contributed significantly to under- stand the interaction of protein and RNA. From his fine research, they have also found other biological function of these small RNAs. He has developed in parallel appropriate methods for his research, of which the protein crystallogenesis, a name he has coined, is an excellent example. Now macromolecular crystallogenesis has become a developed science. In fact, such contribution has accelerated the development of protein crystallography, stimulating the study of macromolecular structure and function.

Highlights

  • It has been a dream that theoretical biology can be extensively applied in experimental biology to accelerate the understanding of the sophiscated movements in living organisms

  • The developments of the combination of theoretical biology and experimental biology have been mainly limited to various classic formulations

  • With the recent fast progress of bioinformatics, prediction of protein structures and various protein attributes have been well established by Chou and co-workers, stimulating the experimental biology

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Summary

CHOU’S GRAPHIC RULES IN BIOLOGICAL SYSTEMS

The extensive calculation in enzyme kinetics, especially for complicated systems often hinders the experimental work of biologists in making significant progress. Using graphical approaches to study biological problems can provide an intuitive picture or useful insights for helping analyzing complicated mechanisms in these systems. The systematic application of graphic theory into enzymology has a significant contribution in this domain. Such graphic methods provide a visually intuitive relation between calculations and reaction graphics, highlighting key points from complicated details, significantly simplifying the calculations and facilitating to check the complicated results. For a brief introduction about “graph theory in enzyme kinetics”, see a Wikipedia article at http://en.wikipedia.org/wiki/Graph_theory_in_enzymatic _kinetics

CHOU’S PSEAAC AND ITS APPLICATIONS IN PREDICTING PROTEIN ATTRIBUTES
WEB-SERVER PREDICTORS
LOW-FREQUENCY INTERNAL MOTION IN BIOMOLECULES AND ITS BIOLOGICAL FUNCTIONS
CHOU’S INVARIENCE THEOREM
MACROMOLECULAR CRYSTALLOGENESIS
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