ProtTest Selection of best-fit models of protein evolution.
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ProtTest Tags

simulation fit protein evolution simulator evolution alignment protein identification protein crystallization protein translocation goodness of fit simulate evolution analyze evolution FIT Fixture validate regulated protein evolution of organisms Protein Evolution Protein Test Protein Alignment protein dichroism protein structures Protein Residue Protein Browser view protein simulate protein evolution protein evolution simulation Convergent Evolution Parallel Evolution mKdV evolution render protein manage Protein DataBank protein vizualizer

ProtTest Description

PROTTEST (ModelTest's relative) is a program for selecting the model of protein evolution that best fits a given set of sequences (alignment). Models included are empirical substitution matrices (such as WAG, LG, mtREV, Dayhoff, DCMut, JTT, VT, Blosum62, CpREV, RtREV, MtMam, MtArt, HIVb, and HIVw) that indicate relative rates of amino acid replacement, and specific improvements (+I:invariable sites, +G: rate heterogeneity among sites, +F: observed amino acid frequencies) to account for the evolutionary constraints impossed by conservation of protein structure and function. ProtTest uses the Akaike Information Criterion (AIC) and other statistics (AICc and BIC) to find which of the candidate models best fits the data at hand. Give ProtTest a try to fully assess its capabilities!

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