منابع مشابه
CLP-based Protein Fragment Assembly
The paper investigates a novel approach, based on Constraint Logic Programming (CLP), to predict the 3D conformation of a protein via fragments assembly. The fragments are extracted by a preprocessor—also developed for this work— from a database of known protein structures that clusters and classifies the fragments according to similarity and frequency. The problem of assembling fragments into ...
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The paper investigates a novel approach, based on Constraint Logic Programming (CLP), to predict potential 3D conformations of a protein via fragments assembly. The fragments are extracted and clustered by a preprocessor from a database of known protein structures. Assembling fragments into a complete conformation is modeled as a constraint satisfaction problem solved using CLP. The approach ma...
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We present a tool that predicts the 3D conformation of a protein, based on Constraint Logic Programming and fragment assembly. The fragments are derived from a database of known protein structures with a preprocessor —also developed for this work— that clusters and classifies the fragments according to their similarity and frequency. The fragments are used as building blocks by the CLP program ...
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Despite recent developments in protein structure prediction, an accurate new fold prediction algorithm remains elusive. One of the challenges facing current techniques is the size and complexity of the space containing possible structures for a query sequence. Traditionally, to explore this space fragment assembly approaches to new fold prediction have used stochastic optimization techniques. H...
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We propose a novel method for ab-initio prediction of protein tertiary structures based on the fragment assembly and global optimization. Fifteen residue long fragment libraries are constructed using the secondary structure prediction method PREDICT, and fragments in these libraries are assembled to generate full-length chains of a query protein. Tertiary structures of 50 to 100 conformations a...
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ژورنال
عنوان ژورنال: Theory and Practice of Logic Programming
سال: 2010
ISSN: 1471-0684,1475-3081
DOI: 10.1017/s1471068410000372