RMS/Coverage graphs: A qualitative method for comparing three‐dimensional protein structure predictions
By Tim J. P. Hubbard. 1999
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Citations in the corpus
- lDDT: a local superposition-free score for comparing protein structures and models using distance difference tests (2013, methodology): “In the course of the CASP experiment, model comparison techniques have evolved to reflect the current state of the art of prediction techniques: In the first installments of CASP, root mean square deviation (RMSD) between a prediction and the superposed reference structures was used in various forms”
- TM-align: a protein structure alignment algorithm based on the TM-score (2005, neutral): “The above-obtained initial alignments are submitted to a heuristic iterative algorithm, which has been extensively used in refining NP-hard structure-based alignments (14,18,21).”
- Rosetta in CASP4: Progress in ab initio protein structure prediction (2001, methodology): “Overall summaries of the quality of the predictions for each target are provided in Table I and by the Hubbard plots in Figure 2.(18) For 17 of the 21 domains attempted with fewer than 300 residues, fragments of 50 residues were predicted with RMSDs of 6.”
- Ab initio protein structure prediction. (2002, result): “Figure 1, a Hubbard plot [9,10] for one of the eight proteins in the novel fold category, indicates that the methods of several groups were able to predict long contiguous segments of the protein [2 1 is that many different methods were able to obtain comparable results, but none were able to…”
- MaxSub: an automated measure for the assessment of protein structure prediction quality (2000, methodology): “For CASP, assessment techniques have been developed by Bryant and colleagues (Moult et al., 1997; Marchler- Bauer and Bryant, 1999), Sippl and colleagues (Lackner et al., 1999; Hubbard, 1999), the CASP Prediction Center (Zemla et al., 1999) and others.”