Examining the Conservation of Kinks in Alpha Helices
Law, EC; Wilman, HR; Kelm, S; Shi, JY; Deane, CM; Deane, CM (reprint author), Univ Oxford, Dept Stat, Oxford OX1 3TG, England.
2016
发表期刊PLOS ONE
ISSN1932-6203
卷号11期号:6页码:
文章类型期刊文献
摘要Kinks are a structural feature of alpha-helices and many are known to have functional roles. Kinks have previously tended to be defined in a binary fashion. In this paper we have deliberately moved towards defining them on a continuum, which given the unimodal distribution of kink angles is a better description. From this perspective, we examine the conservation of kinks in proteins. We find that kink angles are not generally a conserved property of homologs, pointing either to their not being functionally critical or to their function being related to conformational flexibility. In the latter case, the different structures of homologs are providing snapshots of different conformations. Sequence identity between homologous helices is informative in terms of kink conservation, but almost equally so is the sequence identity of residues in spatial proximity to the kink. In the specific case of proline, which is known to be prevalent in kinked helices, loss of a proline from a kinked helix often also results in the loss of a kink or reduction in its kink angle. We carried out a study of the seven transmembrane helices in the GPCR family and found that changes in kinks could be related both to subfamilies of GPCRs and also, in a particular subfamily, to the binding of agonists or antagonists. These results suggest conformational change upon receptor activation within the GPCR family. We also found correlation between kink angles in different helices, and the possibility of concerted motion could be investigated further by applying our method to molecular dynamics simulations. These observations reinforce the belief that helix kinks are key, functional, flexible points in structures.
关键词Protein-coupled Receptors Transmembrane Helices Structure Alignment Membrane-proteins Data-bank Proline Distortions Activation Algorithm Features
DOI10.1371/journal.pone.0157553
收录类别SCI
语种英语
WOS记录号WOS:000378030000034
引用统计
被引频次:2[WOS]   [WOS记录]     [WOS相关记录]
文献类型期刊论文
条目标识符http://ir.sinap.ac.cn/handle/331007/25720
专题中科院上海应用物理研究所2011-2018年
通讯作者Deane, CM (reprint author), Univ Oxford, Dept Stat, Oxford OX1 3TG, England.
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Law, EC,Wilman, HR,Kelm, S,et al. Examining the Conservation of Kinks in Alpha Helices[J]. PLOS ONE,2016,11(6):—.
APA Law, EC,Wilman, HR,Kelm, S,Shi, JY,Deane, CM,&Deane, CM .(2016).Examining the Conservation of Kinks in Alpha Helices.PLOS ONE,11(6),—.
MLA Law, EC,et al."Examining the Conservation of Kinks in Alpha Helices".PLOS ONE 11.6(2016):—.
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