LIMITS ON ALPHA-HELIX PREDICTION WITH NEURAL NETWORK MODELS

被引:19
作者
HAYWARD, S [1 ]
COLLINS, JF [1 ]
机构
[1] INST CELL & MOLEC BIOL,BIOCOMP RES UNIT,EDINBURGH EH9 3JR,SCOTLAND
来源
PROTEINS-STRUCTURE FUNCTION AND GENETICS | 1992年 / 14卷 / 03期
关键词
SECONDARY STRUCTURE PREDICTION; INPUT SPACE; PARALLEL PROCESSING;
D O I
10.1002/prot.340140306
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Using a backpropagation neural network model we have found a limit for secondary structure prediction from local sequence. By including only sequences from whole alpha-helix and non-alpha-helix structures in our training and test sets-sequences spanning boundaries between these two structures were excluded-it was possible to investigate directly the relationship between sequence and structure for alpha-helix. A group of non-alpha-helix sequences, that was disrupting overall prediction success, was indistinguishable to the network from alpha-helix sequences. These sequences were found to occur at regions adjacent to the termini of alpha-helices with statistical significance, suggesting that potentially longer alpha-helices are disrupted by global constraints. Some of these regions spanned more than 20 residues. On these whole structure sequences, 10 residues in length, a comparatively high prediction success of 78% with a correlation coefficient of 0.52 was achieved. In addition, the structure of the input space, the distribution of beta-sheet in this space, and the effect of segment length were also investigated.
引用
收藏
页码:372 / 381
页数:10
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