Structural bioinformatics
- Structural bioinformatics
__NOTOC__Structural bioinformatics refers to the branch of bioinformatics which is related to the analysis and prediction of the three-dimensional structure of biological macromolecules such as proteins. The term "structural" has the same meaning as in structural biology, and structural bioinformatics can be seen as computational structural biology.
See also
* MMDB
* Protein Data Bank
* SCOP
* STING
References
Books
* Bourne, Weissig (2003) "Structural Bioinformatics", Wiley ISBN 0-471-20199-5
* Leach, Andrew (2001) "Molecular Modelling: Principles and Applications" (2nd edition), Prentice Hall, ISBN 978-0582382107
Hallmark publications
* Richardson, J.S. (1981) "The anatomy and taxonomy of protein structure". "Adv. Protein Chem.", 34, 167-339.
* G.N. Ramachandran, C. Ramakrishnan, and V. Sasisekharan. "Stereochemistry of polypeptide chain configurations". "J. Mol. Biol.", 7:95-9, 1963.
* G.N. Ramachandran and V. Sasisekharan. "Conformation of polypeptides and proteins". "Adv. Protein Chem.", 23:283-438, 1968.
External links
Databases
* [http://www.ncbi.nlm.nih.gov/Structure/MMDB/mmdb.shtml MMDB]
* [http://scop.mrc-lmb.cam.ac.uk/scop/ SCOP]
Software
* [http://www.cbi.cnptia.embrapa.br/SMS STING]
* [http://www.pymol.org/ PyMOL viewer]
* [http://www.ks.uiuc.edu/Research/vmd/ VMD viewer]
* [http://www.mol.biol.ethz.ch/wuthrich/software/molmol/ MolMol viewer]
* [http://www.expasy.org/spdbv/ SPDBV DeepView viewer]
* [http://www.embl-heidelberg.de/argos/stride/stride_info.html STRIDE]
* [http://www.biochem.ucl.ac.uk/~roman/procheck/procheck.html PROCHECK] , a web service
* [http://i.moltalk.org iMolTalk] , a web service
* [http://www.jmol.org/ Jmol] , a molecular viewer Java applet with rasmol-like scripting capabilities and Javascript interaction
* [http://propka.ki.ku.dk, PROPKA] , rapid prediction of protein pKa values based on empirical structure/function relationships
* [http://www.nmr.ch/ CARA] - Computer Aided Resonance Assignment
* [http://web.mit.edu/star/biochem StarBiochem] , a java protein viewer, features direct search of protein databank
* Biskit, a python platform for structural bioinformatics
* [http://www.spadeweb.org/ SPADE] the structural proteomics application development environment
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