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research
Prots: A fragment based protein thermo‐stability potential
Authors
Altschul
Bae
+64 more
Becktel
Berezovsky
Berezovsky
Brych
Capriotti
Chan
Cheng
Chennamsetty
Culajay
Dahiyat
Dalluge
Deutsch
Finn
Frokjaer
Gianese
Glyakina
Gromiha
Gromiha
Gu
Gu
Guerois
Haney
Huang
Kabsch
Kim
Korkegian
Kryshtafovych
Kumar
Lazar
Li
Li
Li
Li
Liang
Lippow
Mandrich
Masso
Masso
McDonald
Menendez-Arias
Metpally
Montanucci
Moult
Pokala
Potapov
Razvi
Schoemaker
Schweiker
Singh
Sterner
Unsworth
Wu
Wu
Wu
Yin
Zeldovich
Zhang
Zhang
Zhang
Zhang
Zhang
Zhang
Zhou
Zhou
Publication date
1 January 2012
Publisher
'Wiley'
Doi
Cite
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on
PubMed
Abstract
Designing proteins with enhanced thermo‐stability has been a main focus of protein engineering because of its theoretical and practical significance. Despite extensive studies in the past years, a general strategy for stabilizing proteins still remains elusive. Thus effective and robust computational algorithms for designing thermo‐stable proteins are in critical demand. Here we report PROTS, a sequential and structural four‐residue fragment based protein thermo‐stability potential. PROTS is derived from a nonredundant representative collection of thousands of thermophilic and mesophilic protein structures and a large set of point mutations with experimentally determined changes of melting temperatures. To the best of our knowledge, PROTS is the first protein stability predictor based on integrated analysis and mining of these two types of data. Besides conventional cross validation and blind testing, we introduce hypothetical reverse mutations as a means of testing the robustness of protein thermo‐stability predictors. In all tests, PROTS demonstrates the ability to reliably predict mutation induced thermo‐stability changes as well as classify thermophilic and mesophilic proteins. In addition, this white‐box predictor allows easy interpretation of the factors that influence mutation induced protein stability changes at the residue level. Proteins 2012; © 2011 Wiley Periodicals, Inc.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/89526/1/23163_ftp.pd
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