Feasibility in the inverse protein folding protocol
نویسندگان
چکیده
منابع مشابه
Feasibility in the inverse protein folding protocol.
Methods for protein structure (3D)-sequence (1D) compatibility evaluation (threading) have been developed during the past decade. The protocol in which a sequence can recognize its compatible structure in the structural library (i.e., the fold recognition or the forward-folding search) is available for the structure prediction of new proteins. However, the reverse protocol, in which a structure...
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Accurately assigning folds for divergent protein sequences is a major obstacle to structural studies and underlies the inverse protein folding problem. Herein, we outline our theories for fold-recognition in the “twilight-zone” of sequence similarity (<25% identity). Our analyses demonstrate that structural sequence profiles built using Position-Specific Scoring Matrices (PSSMs) significantly o...
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In this paper we investigate the inverse protein folding (IPF) problem under the Canonical model on 3D and 2D lattices [13, 26]. In this problem, we are given a contact graph G = (V,E) of a protein sequence that is embeddable in a 3D (respectively, 2D) lattice and an integer 1 ≤ K ≤ |V |. The goal is to find an induced subgraph of G of at most K vertices with the maximum number of edges. In thi...
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Inverse protein folding, which seeks to identify sequences that fold into a given structure, has been approached by threading candidate sequences onto the structure and scoring them with database-derived potentials. The sequences with the lowest energies are predicted to fold into that structure. It has been argued that the limited success of this type of approach is not due to the discrepancy ...
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ژورنال
عنوان ژورنال: Protein Science
سال: 1999
ISSN: 0961-8368,1469-896X
DOI: 10.1110/ps.8.5.1001