A fast, stochastic threading algorithm for proteins. | Zendy

Oakley H. Crawford | Zendy

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A fast, stochastic threading algorithm for proteins.

Author(s) -

Oakley H. Crawford

Publication year - 1999

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/15.1.66

Subject(s) - threading (protein sequence) , algorithm , computer science , protein structure prediction , sequence (biology) , sequence alignment , function (biology) , protein structure , peptide sequence , biology , genetics , gene , biochemistry

Sequences for new proteins are being determined at a rapid rate, as a result of the Human Genome Project, and related genome research. The ability to predict the three-dimensional structure of proteins from sequence alone would be useful in discovering and understanding their function. Threading, or fold recognition, aims to predict the tertiary structure of a protein by aligning its amino acid sequence with a large number of structures, and finding the best fit. This approach depends on obtaining good performance from both the scoring function, which simulates the free energy for given trial alignments, and the threading algorithm, which searches for the lowest-score alignment. It appears that current scoring functions and threading algorithms need improvement.

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