Direct correlation analysis improves fold recognition
نویسندگان
چکیده
منابع مشابه
Incorporation of Local Structural Preference Potential Improves Fold Recognition
Fold recognition, or threading, is a popular protein structure modeling approach that uses known structure templates to build structures for those of unknown. The key to the success of fold recognition methods lies in the proper integration of sequence, physiochemical and structural information. Here we introduce another type of information, local structural preference potentials of 3-residue a...
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Protein families are a rich source of information; sequence conservation and sequence correlation are two of the main properties that can be derived from the analysis of multiple sequence alignments. Sequence conservation is related to the direct evolutionary pressure to retain the chemical characteristics of some positions in order to maintain a given function. Sequence correlation is attribut...
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Chen-Yi Gao, Hai-Jun Zhou1,3,5∗, and Erik Aurell2,4† Key Laboratory of Theoretical Physics, Institute of Theoretical Physics, Chinese Academy of Sciences, Beijing 100190, China Department of Computational Biology, KTH-Royal Institute of Technology, SE-10044 Stockholm, Sweden School of Physical Sciences, University of Chinese Academy of Sciences, Beijing 100049, China Depts of Applied Physics an...
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During recent years many protein fold recognition methods have been developed, based on different algorithms and using various kinds of information. To examine the performance of these methods several evaluation experiments have been conducted. These include blind tests in CASP/CAFASP, large scale benchmarks, and long-term, continuous assessment with newly solved protein structures. These studi...
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Protein structure prediction is limited by the inaccuracy of the simplified energy functions necessary for efficient sorting over many conformations. It was recently suggested (Finkelstein, Phys Rev Lett 1998;80:4823-4825) that these errors can be reduced by energy averaging over a set of homologous sequences. This conclusion is confirmed in this study by testing protein structure recognition i...
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ژورنال
عنوان ژورنال: Computational Biology and Chemistry
سال: 2011
ISSN: 1476-9271
DOI: 10.1016/j.compbiolchem.2011.08.002