[Analysis and realization of the method for predicting physical pathways of allosteric communication in a protein family].
A fundamental goal in signal transduction study is to understand allosteric communication. The authors present hereby a statistical coupling analysis method (developed by Steve W. Lockless etc.) for quantitative mapping of the global network of amino acid positions in a protein and predicting a set of energetically coupled positions, which may constitute the physical pathways of allosteric communication in a protein family. Based on MATLAB, the authors realized this method and created histograms of amino acid distributions for all 63 395 entries (as of April 2004) in the Swiss-Prot database of eukaryotic proteins and calculated the mean values. The result was similar to that calculated by Steve W. Lockless in October 1998.
Tan
Xiao-dan
XD
Department of Biomedical Engineering, Southern Medical University, Guangzhou 510515, China.
Lu
Zhi-yong
ZY
Su
Yong-chun
YC
Dong
Ai-rong
AR
Deng
Qin-Kai
QK
D000494:Allosteric Regulation; D000596:Amino Acids / Q000737:chemistry* / Q000378:metabolism; D008958:Models, Molecular; D011485:Protein Binding; D011487:Protein Conformation; D016415:Sequence Alignment / Q000379:methods*; D020539:Sequence Analysis, Protein / Q000379:methods*; D015398:Signal Transduction
D000596:Amino Acids