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Biochemistry, Biophysics, and Structural Biology Commons

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Retrospective Theses and Dissertations

2003

Bioinformatics and computational biology

Articles 1 - 3 of 3

Full-Text Articles in Biochemistry, Biophysics, and Structural Biology

Identification And Functional Analysis Of Thylakoid Membrane Proteome , Yingchun Wang Jan 2003

Identification And Functional Analysis Of Thylakoid Membrane Proteome , Yingchun Wang

Retrospective Theses and Dissertations

Membrane proteins play crucial roles in many biological functions. Identities and functions of most membrane proteins remain to be revealed. New technological breakthroughs in proteomics together with the availability of genomic sequence information make it possible to study functions of membrane proteins on a genome-wide scale. We used a multidisciplinary approach combining biochemistry, genetics, proteomics and bioinformatics to study the functions of the thylakoid proteome of Synechocystis sp. PCC6803. The thylakoid membrane proteins were separated into peripheral and integral fractions and resolved into 2-D gels with different pH ranges. The protein spots in the 2-D gels were subjected to peptide ...


Protein-Carbohydrate And Protein-Protein Interactions: Using Models To Better Understand And Predict Specific Molecular Recognition, Alain Teboho Laederach Jan 2003

Protein-Carbohydrate And Protein-Protein Interactions: Using Models To Better Understand And Predict Specific Molecular Recognition, Alain Teboho Laederach

Retrospective Theses and Dissertations

Any molecular recognition event results in a change in the free energy of the system. The extent of this change is related to the association constant, such that the more negative the free energy change is, the tighter the interaction between receptor and ligand. Protein-carbohydrate interactions play a critical role in signal transduction, innate immunity, and metabolism. Modeling these interactions is somewhat complicated by the inherent flexibility of carbohydrates as well as their relatively large number of functional groups. An empirical scoring function for docking carbohydrates to proteins, specifically tailored to predict both the correct binding orientation and free energy ...


Functional Divergence And Genome Evolution Of Vertebrate Protein Kinases (Kinome), Jianying Gu Jan 2003

Functional Divergence And Genome Evolution Of Vertebrate Protein Kinases (Kinome), Jianying Gu

Retrospective Theses and Dissertations

The emerging complete and nearly complete genome sequences have provided a significant amount of materials for large-scale comparative genomic analysis. Novel methods have been developed to elucidate the function of gene products and functional interacting networks. Many of these post-genomic attempts have focused on unveiling the evolutionary forces that have shaped the network organization. Among various evolutionary forces, duplication of functional domain, individual gene, chromosomal segment, or entire genome has long been thought as primary resource for the function novelties in a vast number of gene families. It is therefore intriguing to quantitatively trace the changes of evolutionary constraints after ...