Deciphering the Preference and Predicting the Viability of Circular Permutations in Proteins

• Published in: PloS one Vol. 7; no. 2; p. e31791
• Main Authors: Lo, Wei-Cheng, Dai, Tian, Liu, Yen-Yi, Wang, Li-Fen, Hwang, Jenn-Kang, Lyu, Ping-Chiang
• Format: Journal Article
• Language: English
• Published: United States Public Library of Science 16.02.2012; Public Library of Science (PLoS)
• Subjects: Algorithms; Amino Acid Sequence; Analysis; Artificial intelligence; Artificial neural networks; Back propagation; Biochemistry; Bioinformatics; Biology; Biotechnology; Bonding strength; Chemical bonds; Coiling; Coils; Computer Simulation; Datasets; Dihydrofolate reductase; Enzymes; Forest management; Helices; Hydrogen; Hydrogen bonding; Hydrogen bonds; Hydrophobicity; Learning algorithms; Ligands; Machine learning; Models, Molecular; Molecular biology; Molecular dynamics; Mutagenesis; Neural networks; Permutations; Predictions; Protein Engineering; Protein folding; Proteins; Proteins - chemistry; Reductase; Researchers; Residues; Simulation; Software packages; Statistical methods; Statistical tests; Structural stability; Structure-function relationships; Support Vector Machine; Viability; United States > US; China; Taiwan
• ISSN: 1932-6203; 1932-6203
• DOI: 10.1371/journal.pone.0031791

Circular permutation (CP) refers to situations in which the termini of a protein are relocated to other positions in the structure. CP occurs naturally and has been artificially created to study protein function, stability and folding. Recently CP is increasingly applied to engineer enzyme structure...