title: [Protein structure prediction from analogy. II. Testing of substitution matrices and pseudo-potentials used to align protein sequences with folds].
abstract: The paper describes results of testing of "recognition ability" of different substitution matrices and various pseudo-potentials (taken from literature or designed by us) to recognize protein structures and produce the sequence-to-structure alignments. Numerical estimates of "identifying power" of various matrices and pseudo-potentials are obtained for different levels of similarity between amino acid sequences of spatially-similar proteins. It is shown that substitution matrices work much better than pseudo-potentials at a high level of similarity of sequences of spatially-similar proteins, but some pseudo-potentials overcome substitution matrices at a low level of sequence similarity.
authors.forename: M Iu
authors.initials: MIu
authors.lastname: Lobanov
authors.forename: A V
authors.initials: AV
authors.lastname: Fil'kenshteĭn
mesh_terms: D000595:Amino Acid Sequence / Q000502:physiology; D008958:Models, Molecular; D017510:Protein Folding; D017434:Protein Structure, Tertiary / Q000502:physiology; D011506:Proteins / Q000737:chemistry / Q000235:genetics*; D040681:Structural Homology, Protein
chemical_list: D011506:Proteins