Structural genomics
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Structural genomics or structural bioinformatics refers to the analysis of macromolecular structure particularly proteins, using computational tools and theoretical frameworks. One of the goals of structural genomics is the extension of idea of genomics, to obtain accurate three-dimensional structural models for all known protein families, protein domains or protein folds. Structural alignment is a tool of structural genomics.
See also
Databases
- Protein Data Bank
- MMDB [1] (http://www.ncbi.nlm.nih.gov/Structure/MMDB/mmdb.shtml)
- SCOP [2] (http://scop.mrc-lmb.cam.ac.uk/scop/)
References
Books
- Bourne, Weissig (2003) Structural Bioinformatics, Wiley ISBN 0-471-20199-5
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
Research centers
- Protein Structure Initiative (http://www.nigms.nih.gov/psi/)
- Northeast Structural Genomics Consortium (http://www.nesg.org)
- The Midwest Center for Structural Genomics (http://www.mcsg.anl.gov)
- Berkeley Structural Genomics Center (http://www.strgen.org/)
- Center for Eukaryotic Structural Genomics (http://www.uwstructuralgenomics.org/)
- Yeast Structural Genomics (Genomique Structurale de la levure) (http://genomics.eu.org/)
- RIKEN Structural Genomics/Proteomics Initiative (http://www.rsgi.riken.go.jp/)
- Structural Genomics of Pathogenic Protozoa (http://www.sgpp.org/)
- The Joint Center for Structural Genomics (http://www.jcsg.org/)
- Mycobacterium tuberculosis Structural Genomics Consortium (http://www.doe-mbi.ucla.edu/TB/)
- New York Structural Genomics Research Consortium (NYSGRC) (http://www.nysgrc.org/)
- NJCST Initiative in Structural Genomics and Bioinformatics (http://www-nmr.cabm.rutgers.edu/structuralgenomics/)
- Structural Genomics at Brookhaven Natl. Labs (http://proteome.bnl.gov/)
- Structure to Function Pilot Project: CARB (http://s2f.carb.nist.gov/)
- The Southeast Collaboratory for Structural Genomics (http://www.secsg.org/)
- Toronto Structural Proteomics Consortium (http://www.uhnres.utoronto.ca/proteomics/)
- The Structural Genomics Consortium (http://www.sgc.utoronto.ca/)
- Protein Structure Factory (http://www.proteinstrukturfabrik.de/)
Software
- PyMOL viewer (http://www.pymol.org/)
- VMD viewer (http://www.ks.uiuc.edu/Research/vmd/)
- MolMol viewer (http://www.mol.biol.ethz.ch/wuthrich/software/molmol/)
- SPDBV DeepView viewer (http://www.expasy.org/spdbv/)
- STRIDE (http://www.embl-heidelberg.de/argos/stride/stride_info.html)
- PROCHECK (http://www.biochem.ucl.ac.uk/~roman/procheck/procheck.html) a web service
- iMolTalk (http://i.moltalk.org) a webservice
- Jmol (http://www.jmol.org/) - molecular viewer Java applet with rasmol-like scripting capabilities and javascript interaction
| Genomics topics |
| Genome project | Glycomics | Human Genome Project | Proteomics | Structural genomics |
| Bioinformatics | Systems biology |