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The TM-score indicates the similarity between two structures by a score between (,], where 1 indicates a perfect match between two structures (thus the higher the better). [1] Generally scores below 0.20 corresponds to randomly chosen unrelated proteins whereas structures with a score higher than 0.5 assume roughly the same fold. [ 2 ]
The size of this fluctuation can be measured, for example using Mössbauer spectroscopy or nuclear magnetic resonance, and can provide important physical information. The Lindemann index is a method of placing the RMSF in the context of the parameters of the system.
TM-align TM-score based protein structure alignment: Cα: Pair: nil: server and download: Y. Zhang & J. Skolnick: 2005 mTM-align Multiple protein structure alignment based on TM-align Cα Multi No server and download: R. Dong, Z. Peng, Y. Zhang & J. Yang 2018 VAST Vector Alignment Search Tool: SSE: Pair: nil: server: S. Bryant: 1996 PrISM
This same prediction also assigns 20% likelihood to the opposite case, and so if the prediction proves false, it would receive a score based on the 20%: ln(0.2) = −1.6. The goal of a forecaster is to maximize the score and for the score to be as large as possible, and −0.22 is indeed larger than −1.6.
Transitive Consistency Score (TCS) is an extended version of the T-Coffee scoring scheme. [14] It uses T-Coffee libraries of pairwise alignments to evaluate any third party MSA. Pairwise projections can be produced using fast or slow methods, thus allowing a trade-off between speed and accuracy.
Despite its simplicity, the trimean is a remarkably efficient estimator of population mean. More precisely, for a large data set (over 100 points [3]) from a symmetric population, the average of the 18th, 50th, and 82nd percentile is the most efficient 3-point L-estimator, with 88% efficiency. [4]
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It is worth restating the above result in words: the expected value of the score, at true parameter value is zero. Thus, if one were to repeatedly sample from some distribution, and repeatedly calculate the score, then the mean value of the scores would tend to zero asymptotically .