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. 2009 Nov 16;9:71. doi: 10.1186/1472-6807-9-71

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Copyright ©2009 Aloy and Oliva; licensee BioMed Central Ltd.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Comparison of RMSD and residue-position Zscores for target 1dxt in MOULDER. Comparison of RMSD of the Cα trace of a decoy conformer (model 113) of target 1dxt in MOULDER and its residue-position Zscores Sc, ScZE_min, and Z_AE_min. 8.a) RMSD is compared with residue-position Zscores. 9.b) RMSD is compared with the difference of residue-position Zscores between the model and the native structure (1dxt). 8.c) Residue-position Zscores and RMSD values of the Cα trace are normalized along the sequence and compared. Feature colors are: RMSD in blue, Sc in red, ScZE_minin green, in black and Z_AE_minin cyan. 8.d) The native structure of 1dxt is shown in ribbons (green) superposed with the structure of the near-native decoy (model 113, in cyan), showing the fragments with higher residue-position Zscores and RMSD in orange (native) and yellow (model 113).

Inline graphic — Comparison of RMSD and residue-position Zscores for target 1dxt in MOULDER. Comparison of RMSD of the Cα trace of a decoy conformer (model 113) of target 1dxt in MOULDER and its residue-position Zscores Sc, ScZE_min, and Z_AE_min. 8.a) RMSD is compared with residue-position Zscores. 9.b) RMSD is compared with the difference of residue-position Zscores between the model and the native structure (1dxt). 8.c) Residue-position Zscores and RMSD values of the Cα trace are normalized along the sequence and compared. Feature colors are: RMSD in blue, Sc in red, ScZE_minin green, in black and Z_AE_minin cyan. 8.d) The native structure of 1dxt is shown in ribbons (green) superposed with the structure of the near-native decoy (model 113, in cyan), showing the fragments with higher residue-position Zscores and RMSD in orange (native) and yellow (model 113).