Construction and analysis of a plant non-specific lipid transfer protein database (nsLTPDB)

Nai Jyuan Wang, Chi Ching Lee, Chao Sheng Cheng, Wei-Cheng Lo, Ya Fen Yang, Ming Nan Chen, Ping Chiang Lyu*

*Corresponding author for this work

研究成果: Conference article同行評審

32 引文 斯高帕斯(Scopus)

摘要

Background: Plant non-specific lipid transfer proteins (nsLTPs) are small and basic proteins. Recently, nsLTPs have been reported involved in many physiological functions such as mediating phospholipid transfer, participating in plant defence activity against bacterial and fungal pathogens, and enhancing cell wall extension in tobacco. However, the lipid transfer mechanism of nsLTPs is still unclear, and comprehensive information of nsLTPs is difficult to obtain.

Methods: In this study, we identified 595 nsLTPs from 121 different species and constructed an nsLTPs database-nsLTPDB-which comprises the sequence information, structures, relevant literatures, and biological data of all plant nsLTPs http://nsltpdb.life.nthu.edu.tw/.

Results: Meanwhile, bioinformatics and statistics methods were implemented to develop a classification method for nsLTPs based on the patterns of the eight highly-conserved cysteine residues, and to suggest strict Prositestyled patterns for Type I and Type II nsLTPs. The pattern of Type I is C X2 V X5-7 C [V, L, I] × Y [L, A, V] X8-13 CC ×G X12 D × [Q, K, R] X2 CXC X16-21 P X2 C X13-15C, and that of Type II is C X4 L X2 C X9-11 P [S, T] X2 CC X5 Q X2-4 C[L,F]C X2 [A, L, I] × [D, N] P X10-12 [K, R] X4-5 C X3-4 P X0-2 C. Moreover, we referred the Prosite-styled patterns to the experimental mutagenesis data that previously established by our group, and found that the residues with higher conservation played an important role in the structural stability or lipid binding ability of nsLTPs.

Conclusions: Taken together, this research has suggested potential residues that might be essential to modulate the structural and functional properties of plant nsLTPs. Finally, we proposed some biologically important sites of the nsLTPs, which are described by using a new Prosite-styled pattern that we defined.

原文English
文章編號S9
期刊Series on Advances in Bioinformatics and Computational Biology
13
DOIs
出版狀態Published - 1 一月 2012
事件10th Asia Pacific Bioinformatics Conference, APBC 2012 - Melbourne, Australia
持續時間: 17 一月 201219 一月 2012

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