Evolution, substrate specificity and subfamily classification of glycoside hydrolase family 5 (GH5).
Evolution, substrate specificity and subfamily classification of glycoside hydrolase family 5 (GH5).
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DOI：
10.1186/1471-2148-12-186
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发表时间：
2012-09-20
影响因子：
3.4
通讯作者：
Henrissat B
中科院分区：
文献类型：
--
作者：
Aspeborg H;Coutinho PM;Wang Y;Brumer H 3rd;Henrissat B
大型糖苷水解酶家族5（GH 5）将多种作用于β连接的寡聚糖和多糖以及来自多种生物体的糖缀合物的酶聚集在一起。这个酶家族的长期和复杂的进化及其广泛的序列多样性限制了功能预测。为了在基于知识的背景下提高酶特异性的分化，并获得新的进化见解，我们在这里提出了一个新的，强大的家族GH5亚家族分类。在对所有公开可用的GH5序列和相关生化数据的全球分析中，约80%的当前序列被分配到51个亚家族中。具有催化活性的成员的亚家族的检查显示，三分之一是单特异性的（含有单一的酶活性），虽然新的功能可能会被发现在未来的生化表征。此外，二十个亚家族目前还没有任何特征，许多其他亚家族只有有限的结构和生化数据。将功能知识映射到GH5系统发育树上显示，这个历史和工业上重要的家族的序列空间远未分散，突出了需要进一步研究的目标。该分析还发现了一些已经失去催化机制的GH5蛋白，表明它们正在向新功能进化。总体而言，GH5的亚家族划分为糖基因组学的大规模蛋白质序列注释提供了积极策划的资源;亚家族分配可通过碳水化合物活性酶数据库在http://www.cazy.org/GH5.html上公开访问。
The large Glycoside Hydrolase family 5 (GH5) groups together a wide range of enzymes acting on β-linked oligo- and polysaccharides, and glycoconjugates from a large spectrum of organisms. The long and complex evolution of this family of enzymes and its broad sequence diversity limits functional prediction. With the objective of improving the differentiation of enzyme specificities in a knowledge-based context, and to obtain new evolutionary insights, we present here a new, robust subfamily classification of family GH5. About 80% of the current sequences were assigned into 51 subfamilies in a global analysis of all publicly available GH5 sequences and associated biochemical data. Examination of subfamilies with catalytically-active members revealed that one third are monospecific (containing a single enzyme activity), although new functions may be discovered with biochemical characterization in the future. Furthermore, twenty subfamilies presently have no characterization whatsoever and many others have only limited structural and biochemical data. Mapping of functional knowledge onto the GH5 phylogenetic tree revealed that the sequence space of this historical and industrially important family is far from well dispersed, highlighting targets in need of further study. The analysis also uncovered a number of GH5 proteins which have lost their catalytic machinery, indicating evolution towards novel functions. Overall, the subfamily division of GH5 provides an actively curated resource for large-scale protein sequence annotation for glycogenomics; the subfamily assignments are openly accessible via the Carbohydrate-Active Enzyme database at http://www.cazy.org/GH5.html.
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影响因子：
6.8
作者：
Davies, GJ;Gloster, TM;Henrissat, B
通讯作者：
Henrissat, B
影响因子：
3.2
作者：
Han, Yejun;Dodd, Dylan;Cann, Isaac K. O.
通讯作者：
Cann, Isaac K. O.
影响因子：
3.2
作者：
FOONG, FCF;DOI, RH
通讯作者：
DOI, RH
影响因子：
14.8
作者：
Hancock, Susan M.;Rich, Jamie R.;Withers, Stephen G.
通讯作者：
Withers, Stephen G.
DOI：
10.1073/pnas.1121190109
发表时间：
2012-03-13
影响因子：
11.1
作者：
Acuna, Ricardo;Padilla, Beatriz E.;Rose, Jocelyn K. C.
通讯作者：
Rose, Jocelyn K. C.