CASA: An Efficient Automated Assignment of Protein Mainchain NMR Data Using an Ordered Tree Search Algorithm
dc.contributor.author | Wang, Jianyong | en_US |
dc.contributor.author | Wang, Tianzhi | en_US |
dc.contributor.author | Zuiderweg, Erik R. P. | en_US |
dc.contributor.author | Crippen, Gordon M. | en_US |
dc.date.accessioned | 2006-09-08T21:00:48Z | |
dc.date.available | 2006-09-08T21:00:48Z | |
dc.date.issued | 2005-12 | en_US |
dc.identifier.citation | Wang, Jianyong; Wang, Tianzhi; Zuiderweg, Erik R. P.; Crippen, Gordon M.; (2005). "CASA: An Efficient Automated Assignment of Protein Mainchain NMR Data Using an Ordered Tree Search Algorithm." Journal of Biomolecular NMR 33(4): 261-279. <http://hdl.handle.net/2027.42/43050> | en_US |
dc.identifier.issn | 0925-2738 | en_US |
dc.identifier.issn | 1573-5001 | en_US |
dc.identifier.uri | https://hdl.handle.net/2027.42/43050 | |
dc.identifier.uri | http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=retrieve&db=pubmed&list_uids=16341754&dopt=citation | en_US |
dc.description.abstract | Rapid analysis of protein structure, interaction, and dynamics requires fast and automated assignments of 3D protein backbone triple-resonance NMR spectra. We introduce a new depth-first ordered tree search method of automated assignment, CASA, which uses hand-edited peak-pick lists of a flexible number of triple resonance experiments. The computer program was tested on 13 artificially simulated peak lists for proteins up to 723 residues, as well as on the experimental data for four proteins. Under reasonable tolerances, it generated assignments that correspond to the ones reported in the literature within a few minutes of CPU time. The program was also tested on the proteins analyzed by other methods, with both simulated and experimental peaklists, and it could generate good assignments in all relevant cases. The robustness was further tested under various situations. | en_US |
dc.format.extent | 371707 bytes | |
dc.format.extent | 3115 bytes | |
dc.format.mimetype | application/pdf | |
dc.format.mimetype | text/plain | |
dc.language.iso | en_US | |
dc.publisher | Kluwer Academic Publishers; Springer | en_US |
dc.subject.other | Chemistry | en_US |
dc.subject.other | Biochemistry, General | en_US |
dc.subject.other | Biophysics/Biomedical Physics | en_US |
dc.subject.other | Polymer Sciences | en_US |
dc.subject.other | Automatic Assignment | en_US |
dc.subject.other | Generic Spin System | en_US |
dc.subject.other | Ordered Tree Search | en_US |
dc.subject.other | Triple Resonance | en_US |
dc.title | CASA: An Efficient Automated Assignment of Protein Mainchain NMR Data Using an Ordered Tree Search Algorithm | en_US |
dc.type | Article | en_US |
dc.subject.hlbsecondlevel | Natural Resources and Environment | en_US |
dc.subject.hlbsecondlevel | Ecology and Evolutionary Biology | en_US |
dc.subject.hlbsecondlevel | Molecular, Cellular and Developmental Biology | en_US |
dc.subject.hlbtoplevel | Science | en_US |
dc.subject.hlbtoplevel | Health Sciences | en_US |
dc.description.peerreviewed | Peer Reviewed | en_US |
dc.contributor.affiliationum | Department of Physics, University of Michigan, Ann Arbor, MI, 48109-1120, USA | en_US |
dc.contributor.affiliationum | Biophysics Research Division, University of Michigan, Ann Arbor, MI, 48109-1055, USA | en_US |
dc.contributor.affiliationum | Biophysics Research Division, University of Michigan, Ann Arbor, MI, 48109-1055, USA | en_US |
dc.contributor.affiliationum | College of Pharmacy, University of Michigan, Ann Arbor, MI, 48109-1055, USA; Biophysics Research Division, University of Michigan, Ann Arbor, MI, 48109-1055, USA | en_US |
dc.contributor.affiliationumcampus | Ann Arbor | en_US |
dc.identifier.pmid | 16341754 | en_US |
dc.description.bitstreamurl | http://deepblue.lib.umich.edu/bitstream/2027.42/43050/1/10858_2005_Article_4079.pdf | en_US |
dc.identifier.doi | http://dx.doi.org/10.1007/s10858-005-4079-8 | en_US |
dc.identifier.source | Journal of Biomolecular NMR | en_US |
dc.owningcollname | Interdisciplinary and Peer-Reviewed |
Files in this item
Remediation of Harmful Language
The University of Michigan Library aims to describe library materials in a way that respects the people and communities who create, use, and are represented in our collections. Report harmful or offensive language in catalog records, finding aids, or elsewhere in our collections anonymously through our metadata feedback form. More information at Remediation of Harmful Language.
Accessibility
If you are unable to use this file in its current format, please select the Contact Us link and we can modify it to make it more accessible to you.