Back to Search
Start Over
Enhanced protein fold recognition using secondary structure information from nmr
Enhanced protein fold recognition using secondary structure information from nmr
- Source :
- Scopus-Elsevier, ResearcherID
- Publication Year :
- 1999
- Publisher :
- Wiley, 1999.
-
Abstract
- NMR offers the possibility of accurate secondary structure for proteins that would be too large for structure determination. In the absence of an X-ray crystal structure, this information should be useful as an adjunct to protein fold recognition methods based on low resolution force fields. The value of this information has been tested by adding varying amounts of artificial secondary structure data and threading a sequence through a library of candidate folds. Using a literature test set, the threading method alone has only a one-third chance of producing a correct answer among the top ten guesses. With realistic secondary structure information, one can expect a 60-80% chance of finding a homologous structure. The method has then been applied to examples with published estimates of secondary structure. This implementation is completely independent of sequence homology, and sequences are optimally aligned to candidate structures with gaps and insertions allowed. Unlike work using predicted secondary structure, we test the effect of differing amounts of relatively reliable data.
- Subjects :
- Protein Folding
Magnetic Resonance Spectroscopy
Databases, Factual
Sequence analysis
Chemistry
Molecular Sequence Data
Protein structure prediction
Biochemistry
Protein Structure, Secondary
Chemical shift index
Crystallography
Protein structure
Test set
Computer Simulation
Protein folding
Threading (protein sequence)
Molecular Biology
Protein secondary structure
Algorithm
Algorithms
Research Article
Subjects
Details
- ISSN :
- 1469896X and 09618368
- Volume :
- 8
- Database :
- OpenAIRE
- Journal :
- Protein Science
- Accession number :
- edsair.doi.dedup.....4b96ce81fae2a2bebfead51c5f844f66
- Full Text :
- https://doi.org/10.1110/ps.8.5.1127