Macromolecular Geometry

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(Other Resources and Downloadable Software)
 
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== Other Resources and Downloadable Software ==
== Other Resources and Downloadable Software ==
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*[http://tace.molmovdb.org/tacehome.html TACE] calculates pseudo-torsion angle changes in backbone structures given a pair of conformations.
 
*[http://geometry.molmovdb.org/3dhmm/ 3D HMM] compares protein structures.
*[http://geometry.molmovdb.org/3dhmm/ 3D HMM] compares protein structures.
*PGC: The Protein Geometry Calculator
*PGC: The Protein Geometry Calculator
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== Documentation (fairly old) ==
== Documentation (fairly old) ==
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* Lecture in course (http://gersteinlab.org/courses/452) describing voronoi volumes. See
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* [http://www.gersteinlab.org/courses/452/09-spring/pdf/structure2.pdf Lecture] in course (http://gersteinlab.org/courses/452) describing voronoi volumes.
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http://www.gersteinlab.org/courses/452/09-spring/pdf/structure2.pdf
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* [http://papers.gersteinlab.org/subject/volumes/index.html Papers on Volumes]
* [http://papers.gersteinlab.org/subject/volumes/index.html Papers on Volumes]
* Old
* Old

Current revision

We are interested in the calculation of geometrical quantities associated with macromolecular structures and their motions. These include volumes, surfaces, axes, angles, and distances. Volumes and other quantities related to packing are of particular interest. For instance, one goal is to characterize the special type of atom-to-atom packing that occurs at interfaces, such as those between a protein and water. This analysis is motivated by the work on protein packing begun by Fred Richards over a quarter century ago.

Contents

Resources and Downloadable Software for Packing

Other Resources and Downloadable Software

Documentation (fairly old)

Other Stuff

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