A bioinformatic strategy for the detection, classification and analysis of bacterial autotransporters.
A bioinformatic strategy for the detection, classification and analysis of bacterial autotransporters.
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DOI：
10.1371/journal.pone.0043245
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发表时间：
2012
期刊：
影响因子：
3.7
通讯作者：
Lithgow T
中科院分区：
文献类型：
--
作者：
Celik N;Webb CT;Leyton DL;Holt KE;Heinz E;Gorrell R;Kwok T;Naderer T;Strugnell RA;Speed TP;Teasdale RD;Likić VA;Lithgow T
自体转运蛋白是一种分泌的蛋白质，组装在细菌细胞的外膜上。自身转运蛋白的乘客结构域在细菌致病过程中是至关重要的，一些仍然附着在细菌表面，而另一些则通过蛋白分解释放。自体转运蛋白是应该被认为是一类分泌系统，还是仅仅是一种对其分泌有特殊要求的底物，这仍然是一个谜。我们试图建立一种灵敏的搜索方案，可以从细菌基因组序列数据中识别和表征不同的自体转运蛋白。新的序列分析管道从不同的细菌中鉴定了1500多个自动转运蛋白序列，包括大量衣原体和梭杆菌以及所有类别的变形杆菌。对这些蛋白质的询问表明，除了已知的蛋白酶、粘附素和酯酶之外，还有许多种类的客体结构域。此外，桶状结构域--自动转运体的一个特征--被发现由七个保守的序列片段组成，这些序列片段可以在组装的自动转运体的三级结构中以多种方式排列。其中一个保守的基序覆盖了自动转运蛋白到达外膜所需的靶向信息。另一个保守的诊断基序映射到乘客结构域和桶结构域之间的连接区，表明它是自动转运蛋白组装的重要特征。
Autotransporters are secreted proteins that are assembled into the outer membrane of bacterial cells. The passenger domains of autotransporters are crucial for bacterial pathogenesis, with some remaining attached to the bacterial surface while others are released by proteolysis. An enigma remains as to whether autotransporters should be considered a class of secretion system, or simply a class of substrate with peculiar requirements for their secretion. We sought to establish a sensitive search protocol that could identify and characterize diverse autotransporters from bacterial genome sequence data. The new sequence analysis pipeline identified more than 1500 autotransporter sequences from diverse bacteria, including numerous species of Chlamydiales and Fusobacteria as well as all classes of Proteobacteria. Interrogation of the proteins revealed that there are numerous classes of passenger domains beyond the known proteases, adhesins and esterases. In addition the barrel-domain-a characteristic feature of autotransporters-was found to be composed from seven conserved sequence segments that can be arranged in multiple ways in the tertiary structure of the assembled autotransporter. One of these conserved motifs overlays the targeting information required for autotransporters to reach the outer membrane. Another conserved and diagnostic motif maps to the linker region between the passenger domain and barrel-domain, indicating it as an important feature in the assembly of autotransporters.
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影响因子：
3.2
作者：
Brandon, LD;Goldberg, MB
通讯作者：
Goldberg, MB
影响因子：
3.1
作者：
Allsopp, Luke P.;Totsika, Makrina;Schembri, Mark A.
通讯作者：
Schembri, Mark A.
模因套件：用于发现和搜索的工具。
影响因子：
14.9
作者：
Bailey TL;Boden M;Buske FA;Frith M;Grant CE;Clementi L;Ren J;Li WW;Noble WS
通讯作者：
Noble WS
影响因子：
3.4
作者：
Desvaux, M;Khan, A;Henderson, IR
通讯作者：
Henderson, IR
影响因子：
14.9
作者：
Finn RD;Mistry J;Tate J;Coggill P;Heger A;Pollington JE;Gavin OL;Gunasekaran P;Ceric G;Forslund K;Holm L;Sonnhammer EL;Eddy SR;Bateman A
通讯作者：
Bateman A