Low-complexity regions within protein sequences have position-dependent roles.
Low-complexity regions within protein sequences have position-dependent roles.
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DOI：
10.1186/1752-0509-4-43
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发表时间：
2010-04-13
影响因子：
--
通讯作者：
Attwood TK
中科院分区：
文献类型：
--
作者：
Coletta A;Pinney JW;Solís DY;Marsh J;Pettifer SR;Attwood TK
具有偏向氨基酸组成的蛋白质序列区域（所谓的低复杂性区域（LCR））在蛋白质世界中非常丰富。许多研究表明，i) 这些区域在蛋白质家族之间表现出显着差异； ii) 它们产生的遗传机制赋予它们显着的成分可塑性。因此，事实证明很难使用传统的序列分析技术来比较它们，并且其中大多数的功能仍有待阐明。在这里，我们对 LCR 进行了系统的研究，以探索它们可能的功能意义，并将其置于蛋白质-蛋白质相互作用（PPI）网络和基因本体（GO）术语分析的特定背景下。与之前的结果一致，我们发现含有 LCR 的蛋白质往往比不含 LCR 的蛋白质在不同的 PPI 网络中具有更多的结合伙伴。更具体地说，我们的研究表明，i) LCR 优先定位于蛋白质序列末端，与位于中心的 LCR 相比，此类末端 LCR 显示出其长度和连接程度之间的相关性，ii) 位于中心的 LCR 富含转录相关的 GO 术语，而末端 LCR 富含翻译和应激反应相关的术语。我们的结果表明，LCR 不仅可能参与与特定功能相关的灵活结合，而且它们在序列中的位置对于确定它们的结合特性和生物学作用可能很重要。
Regions of protein sequences with biased amino acid composition (so-called Low-Complexity Regions (LCRs)) are abundant in the protein universe. A number of studies have revealed that i) these regions show significant divergence across protein families; ii) the genetic mechanisms from which they arise lends them remarkable degrees of compositional plasticity. They have therefore proved difficult to compare using conventional sequence analysis techniques, and functions remain to be elucidated for most of them. Here we undertake a systematic investigation of LCRs in order to explore their possible functional significance, placed in the particular context of Protein-Protein Interaction (PPI) networks and Gene Ontology (GO)-term analysis. In keeping with previous results, we found that LCR-containing proteins tend to have more binding partners across different PPI networks than proteins that have no LCRs. More specifically, our study suggests i) that LCRs are preferentially positioned towards the protein sequence extremities and, in contrast with centrally-located LCRs, such terminal LCRs show a correlation between their lengths and degrees of connectivity, and ii) that centrally-located LCRs are enriched with transcription-related GO terms, while terminal LCRs are enriched with translation and stress response-related terms. Our results suggest not only that LCRs may be involved in flexible binding associated with specific functions, but also that their positions within a sequence may be important in determining both their binding properties and their biological roles.
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影响因子：
14.9
作者：
UniProt Consortium
通讯作者：
UniProt Consortium
影响因子：
14.9
作者：
Güldener U;Münsterkötter M;Oesterheld M;Pagel P;Ruepp A;Mewes HW;Stümpflen V
通讯作者：
Stümpflen V
影响因子：
64.8
作者：
Gavin, AC;Bösche, M;Superti-Furga, G
通讯作者：
Superti-Furga, G
影响因子：
64.8
作者：
Gavin, AC;Aloy, P;Superti-Furga, G
通讯作者：
Superti-Furga, G
影响因子：
14.9
作者：
Mewes, HW;Frishman, D;Weil, B
通讯作者：
Weil, B