Abstract
This work presents RaptorX, a statistical method for template-based protein modeling that improves alignment accuracy by exploiting structural information in a single or multiple templates. RaptorX consists of three major components: single-template threading, alignment quality prediction, and multiple-template threading. This work summarizes the methods used by RaptorX and presents its CASP9 result analysis, aiming to identify major bottlenecks with RaptorX and template-based modeling and hopefully directions for further study. Our results show that template structural information helps a lot with both single-template and multiple-template protein threading especially when closely-related templates are unavailable, and there is still large room for improvement in both alignment and template selection. The RaptorX web server is available at. Proteins 2011;
Original language | English (US) |
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Pages (from-to) | 161-171 |
Number of pages | 11 |
Journal | Proteins: Structure, Function and Bioinformatics |
Volume | 79 |
Issue number | SUPPL. 10 |
DOIs | |
State | Published - 2011 |
Externally published | Yes |
Keywords
- Alignment quality prediction
- CASP
- Multiple protein alignment
- Multiple-template threading
- Probabilistic alignment
- Single-template threading
ASJC Scopus subject areas
- Structural Biology
- Biochemistry
- Molecular Biology