Structure Prediction from Sequence by Statistical Methods

5 STRUCTURE PREDICTION FROM SEQUENCE BY STATISTICAL METHODS 

An acceptance of the basic principle that the amino acid sequence contains sufficient information to define the 3D structure of a protein in a particular environment has led to many diversified efforts to predict the conformation of proteins from amino acid sequences. Methods for abstracting biomacromolecnlar structures, in particular protein structnres (section 16.5), from their sequences can be aimed at the secondary structure, initially following three stages  

prediction of secondary slructure(s) from amino acid sequence  

determine approximate tertiary fold by packing the secondary structure(s) and 

refinement of the tertiary fold to yield native conformation. 

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There is a considerable impetus to predict accurately protein structures from sequence information because of the protein sequence/structure deficit as a consequence of the genome and full-length cDNA sequencing projects. The molecular mechanical (MM) approach to modeling of protein structures has been discussed in section 9.2, and the protein secondary structure prediction from sequence by statistical methods has been treated in section 9.5. The prediction of protein structure using bioinformatic resources will be described in this subsection. The approaches to protein structure predictions from amino acid sequences (Tsigelny, 2002 Webster, 2000) include ... 

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