Ab initio protein structure assembly using continuous structure fragments and optimized knowledge-based force field
نویسندگان
چکیده
منابع مشابه
Ab initio protein structure assembly using continuous structure fragments and optimized knowledge-based force field.
Ab initio protein folding is one of the major unsolved problems in computational biology owing to the difficulties in force field design and conformational search. We developed a novel program, QUARK, for template-free protein structure prediction. Query sequences are first broken into fragments of 1-20 residues where multiple fragment structures are retrieved at each position from unrelated ex...
متن کاملAb Initio Protein Structure Prediction
Predicting protein 3D structures from the amino acid sequence still remains as an unsolved problem after five decades of efforts. If the target protein has a homologue already solved, the task is relatively easy and high-resolution models can be built by copying the framework of the solved structure. However, such a modelling procedure does not help answer the question of how and why a protein ...
متن کاملToward optimal fragment generations for ab initio protein structure assembly.
Fragment assembly using structural motifs excised from other solved proteins has shown to be an efficient method for ab initio protein-structure prediction. However, how to construct accurate fragments, how to derive optimal restraints from fragments, and what the best fragment length is are the basic issues yet to be systematically examined. In this work, we developed a gapless-threading metho...
متن کاملAb initio protein structure prediction using chunk-TASSER By
We have developed an ab initio protein structure prediction method called chunk-TASSER that uses ab initio folded supersecondary structure chunks of a given target as well as threading templates for obtaining contact potentials and distance restraints. The predicted chunks, selected on the basis of a new fragment comparison method, are folded by a fragment insertion method. Fulllength models ar...
متن کاملAb initio protein structure prediction using chunk-TASSER.
We have developed an ab initio protein structure prediction method called chunk-TASSER that uses ab initio folded supersecondary structure chunks of a given target as well as threading templates for obtaining contact potentials and distance restraints. The predicted chunks, selected on the basis of a new fragment comparison method, are folded by a fragment insertion method. Full-length models a...
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ژورنال
عنوان ژورنال: Proteins: Structure, Function, and Bioinformatics
سال: 2012
ISSN: 0887-3585
DOI: 10.1002/prot.24065