User:Wayne Decatur/Structure analysis tools
From Proteopedia
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* [https://bhapp.c2b2.columbia.edu/PrePPI/ PrePPI]: database of predicted and experimentally determined protein-protein interactions (PPIs) for yeast and human. | * [https://bhapp.c2b2.columbia.edu/PrePPI/ PrePPI]: database of predicted and experimentally determined protein-protein interactions (PPIs) for yeast and human. | ||
* [http://ffas.burnham.org/XtalPred-cgi/xtal.pl XtalPred] - Prediction of Protein Crystallizability (program described by ([http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4220968/ this paper by Mizianty et al. entitled "Covering complete proteomes with X-ray structures: a current snapshot."]<ref>PMID:25372670 </ref>, supposed to be better but I couldn't find a link to a webserver running it. Or anything of it online yet.) | * [http://ffas.burnham.org/XtalPred-cgi/xtal.pl XtalPred] - Prediction of Protein Crystallizability (program described by ([http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4220968/ this paper by Mizianty et al. entitled "Covering complete proteomes with X-ray structures: a current snapshot."]<ref>PMID:25372670 </ref>, supposed to be better but I couldn't find a link to a webserver running it. Or anything of it online yet.) | ||
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| + | * DSSR -(Dissecting the Spatial Structure of RNA), an integrated and automated tool for analyzing and annotating RNA tertiary structures. [http://www.ncbi.nlm.nih.gov/pubmed/?term=DSSR%3A+an+integrated+software+tool+for+dissecting+the+spatial+structure+of+RNA PMID: 26184874 ] (Maybe name of given supplemental data file previously DSSR stood for "DSSR_ a software program for Defining the Secondary Structures of RNA from three-dimensional coordinates".?Jmol now has integrated real time updates to data generated by DSSR, see [https://www.google.com/search?q=jmol+dssr&oq=jmol+dssr&aqs=chrome.0.69i59j69i60.4221j0j7&sourceid=chrome&es_sm=91&ie=UTF-8 here] | ||
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==Related== | ==Related== | ||
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Revision as of 16:29, 7 December 2015
- Superpose from the University of Alberta -a protein superposition server.
- PrePPI: database of predicted and experimentally determined protein-protein interactions (PPIs) for yeast and human.
- XtalPred - Prediction of Protein Crystallizability (program described by (this paper by Mizianty et al. entitled "Covering complete proteomes with X-ray structures: a current snapshot."[1], supposed to be better but I couldn't find a link to a webserver running it. Or anything of it online yet.)
Contents |
RNA
- DSSR -(Dissecting the Spatial Structure of RNA), an integrated and automated tool for analyzing and annotating RNA tertiary structures. PMID: 26184874 (Maybe name of given supplemental data file previously DSSR stood for "DSSR_ a software program for Defining the Secondary Structures of RNA from three-dimensional coordinates".?Jmol now has integrated real time updates to data generated by DSSR, see here
Related
References
- ↑ Mizianty MJ, Fan X, Yan J, Chalmers E, Woloschuk C, Joachimiak A, Kurgan L. Covering complete proteomes with X-ray structures: a current snapshot. Acta Crystallogr D Biol Crystallogr. 2014 Nov;70(Pt 11):2781-93. doi:, 10.1107/S1399004714019427. Epub 2014 Oct 23. PMID:25372670 doi:http://dx.doi.org/10.1107/S1399004714019427
