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Near-Native Protein Loop Sampling Using Nonparametric Density Estimation Accommodating Sparcity

Figure 6

Dependence of input data: length and amount.

(a) Correlation of the best candidate RMSD with loop length. The prediction shows a linear correlation to loop length. (b) Correlation of RMSD of the best candidate to the number of templates. The candidates decrease in RMSD as the number of templates increases to a cutoff of ∼30 templates, suggesting that more than 30 templates do not improve the sampling in the DPM-HMM method.

Figure 6

doi: https://doi.org/10.1371/journal.pcbi.1002234.g006