Structural Bioinformatics
Structural Bioinformatics 
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Description: Structural Bioinformatics is a field of study that uses data on macromolecular structures such as proteins, DNA, RNA, and complexes thereof to make new discoveries about living systems. Examples of areas covered are:
- Structure comparison and classification
- Structure prediction
- Protein-protein interactions
- Protein-ligand interactions
- Electrostatics
- Evolution
Examples of journals which cover the field are:
- Proteins; Structure, Function and Bioinformatics
- BMC Bioinformatics
- Bioinformatics
- Protein Science
- PLoS Computational Biology
The field is also described in Structural Bioinformatics 2003 Ed. P.E.Bourne & H. Weissig from John Wiley and Sons (A second edition from J. Gu and P.E.Bourne (Eds.) will be published early in 2009.
- Structure comparison and classification
- Structure prediction
- Protein-protein interactions
- Protein-ligand interactions
- Electrostatics
- Evolution
Examples of journals which cover the field are:
- Proteins; Structure, Function and Bioinformatics
- BMC Bioinformatics
- Bioinformatics
- Protein Science
- PLoS Computational Biology
The field is also described in Structural Bioinformatics 2003 Ed. P.E.Bourne & H. Weissig from John Wiley and Sons (A second edition from J. Gu and P.E.Bourne (Eds.) will be published early in 2009.
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The proteasome is a multisubunit structure that degrades proteins. Protein degradation is an essential component of regulation because proteins can become misfolded, damaged, or unnecessary. Proteasomes and their homologues vary greatly in complexity: from HslV (heat shock locus v), which is...
Background The ability to predict antibody binding sites (aka antigenic determinants or B-cell epitopes) for a given protein is a precursor to new vaccine design and diagnostics. Among the various methods of B-cell epitope identification X-ray crystallography is one of...
Background That the structure determines the function of proteins is a central paradigm in biology. However, protein functions are more directly related to cooperative effects at the residue and multi-residue scales. As such, current representations based on atomic...
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Further details of the book can be found at http://eu.wiley.com/WileyCDA/WileyTitle/productCd-0470181052.html and on Google Books http://books.google.com/books?id=4H_ai7ivRIcC&pg=PP1&dq=structural+bioinformatics.
Shawn Yost presents his hypothesis that given a database of position-weight matrices created from 3-D models of DNA, one can find the specific protein that has a high probability of binding to a specific DNA sequence and explains how he is going to test it and the implications this could have for...
Thomas Ng presents his research on predicting secondary structure swapping for cross-dressing prions (mis-folded proteins) and the applications of finding a successful prediction method.
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This is lecture 18 (the final lecture) from a graduate student class in structural bioinformatics offered at UCSD see http://www.sdsc.edu/pb/edu/pharm201/ The lecture covers the a brief discussion of some outstanding problems.
This is lecture 17 from a graduate student class in structural bioinformatics offered at UCSD see http://www.sdsc.edu/pb/edu/pharm201/ The lecture covers the features of protein-protein interactions and one method to predict such interactions.
This is lecture 16 from a graduate student class in structural bioinformatics offered at UCSD see http://www.sdsc.edu/pb/edu/pharm201/ The lecture covers molecular graphics and following a brief introduction is a class discussion of the good and bad features of various molecular graphics programs...
