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BIOCOMP
2008

GIPSCo: A Method for Comparison of Protein Structures Based on Geometric Invariants

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GIPSCo: A Method for Comparison of Protein Structures Based on Geometric Invariants
Protein structure comparison is important for elucidation of evolutionary relationships, function and functionally important amino acid residues. We propose Geometric Invariant based Protein Structure Comparison (GIPSCo), an approach that compares a protein pair by using geometric invariants of local geometry of the backbone structures. The geometric invariants capture enough structural information so that the method has a relatively low false positive rate. The method first generates a list of aligned fragment pairs (AFPs) using the geometric invariants of the local geometry. These structurally similar AFPs are assembled using a graph theoretic approach to maximum weighted clique to obtain global structural alignment between two proteins. The proposed method is purely geometric in nature and is independent of sequence alignment and secondary structure assignment. Results for sample protein pairs were compared with well established methods of protein structure alignment. Further, our m...
Sandeep Deshmukh, Aniket Dalal, Pramod Wangikar
Added 29 Oct 2010
Updated 29 Oct 2010
Type Conference
Year 2008
Where BIOCOMP
Authors Sandeep Deshmukh, Aniket Dalal, Pramod Wangikar
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