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首页> 外文会议>Asia-Pacific Bioinformatics Conference(APBC 2003); 200302; Adelaide(AU) >Towards an understanding of protein-protein interaction network hierarchies. Analysis of DnaN (β)-binding peptide motifs in members of protein families interacting with the eubacterial processivity clamp, the β subunit of DNA Polymerase III
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Towards an understanding of protein-protein interaction network hierarchies. Analysis of DnaN (β)-binding peptide motifs in members of protein families interacting with the eubacterial processivity clamp, the β subunit of DNA Polymerase III

机译：对蛋白质-蛋白质相互作用网络层次结构的理解。蛋白质家族成员与DNA聚合酶III的优生过程性钳位相互作用的DnaN（β）结合肽基序分析

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摘要

The consensus pentapeptide QL[SD]LF is a major component in the interaction of a number of families of proteins with the eubacterial DNA-clamp protein, DnaN (the β-subunit of DNA Polymerase III holoenzyme). Rankings of the motifs were established using the program MEME. The distribution of ranking of motifs in the PolC, DinB2 and UmuC protein families were shown to be significantly skewed to higher rankings (ie closer to the consensus), whilst motifs in the DinB1 and DnaE2 protein families were shown to be significantly skewed to lower rankings. Sub-division of the families on the basis of domain architecture, clustering of sequences, presence or absence of members of other DnaN-binding protein families and phylogenetic positions, has identified a number of relationships. Species containing PolC have DnaE1 and DinB1.1 proteins with significantly lower ranking motifs and MutS1 proteins with significantly higher-ranking motifs than average. These observations suggest that this group of eubacteria have a different hierarchy of interactions of DnaN-binding proteins from that in the majority of other species. Members of a new family of proteins of unknown function, Duf72, also have high-ranking putative DnaN-binding motifs. Motifs in a second new family containing putative DnaN-binding sites, DinB3, rank at the lower end.
机译：共有五肽QL [SD] LF是许多蛋白质家族与真细菌DNA钳制蛋白DnaN（DNA聚合酶III全酶的β亚基）相互作用的主要成分。使用MEME程序确定主题的等级。研究表明，PolC，DinB2和UmuC蛋白家族中的基序排名分布明显偏向较高的排名（即接近共识），而DinB1和DnaE2蛋白家族中的基序则明显偏向较低排名。 。根据域结构，序列聚类，是否存在其他DnaN结合蛋白家族成员以及系统发育位置来对家族进行细分，已经确定了许多关系。含有PolC的物种的DnaE1和DinB1.1蛋白的排名基序明显较低，而MutS1蛋白的排名基序明显高于平均水平。这些观察结果表明，这组真细菌与大多数其他物种相比，具有不同的DnaN结合蛋白相互作用层次。未知功能的新蛋白质家族Duf72的成员也具有推测的DnaN结合基序。包含推定的DnaN结合位点DinB3的第二个新家族的基序位于较低端。

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