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Prediction of protein deamidation rates from primary and three-dimensional structure

Robinson, Noah E. and Robinson, Arthur B. (2001) Prediction of protein deamidation rates from primary and three-dimensional structure. Proceedings of the National Academy of Sciences of the United States of America, 98 (8). pp. 4367-4372. ISSN 0027-8424. https://resolver.caltech.edu/CaltechAUTHORS:20141120-150536413

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Abstract

A method for the quantitative estimation of instability with respect to deamidation of the asparaginyl (Asn) residues in proteins is described. The procedure involves the observation of several simple aspects of the three-dimensional environment of each Asn residue in the protein and a calculation that includes these observations, the primary amino acid residue sequence, and the previously reported complete set of sequence-dependent rates of deamidation for Asn pentapeptides. This method is demonstrated and evaluated for 23 proteins in which 31 unstable and 167 stable Asn residues have been reported and for 7 unstable and 63 stable Asn residues that have been reported in 61 human hemoglobin variants. The relative importance of primary structure and three-dimensional structure in Asn deamidation is estimated.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://dx.doi.org/10.1073/pnas.071066498DOIArticle
http://www.pnas.org/content/98/8/4367PublisherArticle
Additional Information:© 2001 National Academy of Sciences. Communicated by Bruce Merrifield, The Rockefeller University, New York, NY, February 8, 2001 (received for review January 13, 2001). We thank Prof. and Mrs. R. B. Merrifield for their advice and encouragement. We also thank the John Kinsman Foundation and other donors to the Oregon Institute of Science and Medicine for financial support.
Funders:
Funding AgencyGrant Number
John Kinsman FoundationUNSPECIFIED
Subject Keywords:biological clocks; proteins
Issue or Number:8
Record Number:CaltechAUTHORS:20141120-150536413
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20141120-150536413
Official Citation:Robinson, N. E., & Robinson, A. B. (2001). Prediction of protein deamidation rates from primary and three-dimensional structure. Proceedings of the National Academy of Sciences, 98(8), 4367-4372. doi: 10.1073/pnas.071066498
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:52020
Collection:CaltechAUTHORS
Deposited By: Jason Perez
Deposited On:21 Nov 2014 21:06
Last Modified:03 Oct 2019 07:38

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