https://digitalcommons.imsa.edu/protein_folding/1007/thumbnail.jp

Arjunakani, Arun, \u2716

Jagusah, Joseph, \u2716

English

Illinois Mathematics and Science Academy: DigitalCommons@IMSA

Predicting Structure: Current Techniques and Challenges TASSER Techniques Fold-It Challenges Challenges (cont.) Bibliography QUARK ● This is a family of structure prediction techniques. ●  I-TASSER is a server based program.  ○ User submits an amino acid ○ Program returns several possible structures based on known ones. ● M-TASSER is a program specifically designed for tertiary structure prediction and is more accurate Bioinformatic Tools. (n.d.). Retrieved November 5, 2015, from  https://bioinformatictools.wordpress.com/tag/i-tasser/  I-TASSER server for protein structure and function prediction. (n.d.). Retrieved  November 2, 2015, from http://zhanglab.ccmb.med.umich.edu/I-  TASSER/about.html  Popović, Z., & Baker, D. (n.d.). Predicting protein structures with a multiplayer online  game. Nature,466, 756–760-756–760. Retrieved November 1, 2015, from  http://www.nature.com/nature/journal/v466/n7307/full/nature09304.html  Xu, Dong, and Yang Zhang. "Ab Initio Protein Structure Assembly Using Continuous  Structure Fragments and Optimized Knowledge-based Force Field." Proteins  Proteins: Structure, Function, and Bioinformatics. Web. 1 Nov. 2015.   ● Most accurate programs require template structures to predict protein folding. ● Knowledge of the temperature and other thermodynamic properties of a protein-solution system is difficult to predict. ● The ‘Search Space’ of all possible conformations of a protein is large when not constraining the search. ● Analysis is generally done on fragments instead of the whole protein. ● Larger proteins (120 amino acids or more) are hard to accurately predict. ● Fold-It is a game designed to teach people about protein structure ● This online game uses rosetta structure prediction methodology ● This is an example of crowdsourcing scientific research. Figure 1: This is a screenshot of the Foldit game. ● QUARK is a program attempting to fold small proteins ab initio. ● QUARK represents proteins by their side-chain center of mass and peptide backbone.. ● QUARK does not fix bond lengths and angles. ● Searches through conformational space allow one-third of short proteins (<100 residues) with TM-ratios of >.5 to be successfully folded By Arun Arjunakani and Joseph Jagusah 

Poster 8: Predicting Structure: Current Techniques and Challenges

https://digitalcommons.imsa.edu/cgi/viewcontent.cgi?article=1007&amp;context=protein_folding

Poster 8: Predicting Structure: Current Techniques and Challenges

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Illinois Mathematics and Science Academy: DigitalCommons@IMSA