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Structural Fragments in Protein Model Refinement

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We survey a method that uses patterns of residue packing in known protein structures to refine structural models. The method can be used to refine models that include only one coordinate point per residue (Cα) and is not dependent on homology. We demonstrate that the method improves both decoy and CASP7 target models.

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Keywords: model refinement; protein structure prediction

Document Type: Research Article

Publication date: 01 September 2008

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  • Protein & Peptide Letters publishes short papers in all important aspects of protein and peptide research, including structural studies, recombinant expression, function, synthesis, enzymology, immunology, molecular modeling, drug design etc. Manuscripts must have a significant element of novelty, timeliness and urgency that merit rapid publication. Reports of crystallisation, and preliminary structure determinations of biologically important proteins are acceptable. Purely theoretical papers are also acceptable provided they provide new insight into the principles of protein/peptide structure and function.
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