Journal of Proteomics & Bioinformatics
Open Access

Namrita Lall

Publications

• Research Article
  Comparative Investigation of Techniques Used for Mtr Homology Model Refinement
  Author(s): Vivek Kumar, Debra Meyer and Namrita Lall Vivek Kumar, Debra Meyer and Namrita Lall
  
  Mtr homology model requires structural refinement to erroneous regions that are not aligned correctly to the template. In this study, refinement methods: LM, MDS, 3Drefine, GalaxyRefine and FG-MD were compared. Errat plot showed a gradual increase in the overall quality factor of ~96% using LM, while there was abrupt increment of >90% for MDS, GalaxyRefine and FG-MD. In the case of LM, structure compatibility decreased to ~53%, whereas it increased to >74% in case of MDS and GalaxyRefine. Ramachandran plot showed residues in favoured region mobilized to allowed and outlier regions in LM, which led to an increased in 3.5% outlier residues. Similarly, 3Drefine and FG-MD also showed increase in outlier residues. In contrast, % residues available in favoured and outlier regions are observed to mobilize into allowed region in case of MDS and GalaxyRefine leading to decreased outlier .. View More»
  DOI: 10.4172/jpb.1000453

  Abstract PDF

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