The Enzyme Function Initiative.
The Enzyme Function Initiative.
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酶功能倡议。
DOI：
10.1021/bi201312u
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发表时间：
2011-11-22
期刊：
影响因子：
2.9
通讯作者：
Sweedler, Jonathan V.
中科院分区：
文献类型：
--
作者：
Gerlt, John A.;Allen, Karen N.;Almo, Steven C.;Armstrong, Richard N.;Babbitt, Patricia C.;Cronan, John E.;Dunaway-Mariano, Debra;Imker, Heidi J.;Jacobson, Matthew P.;Minor, Wladek;Poulter, C. Dale;Raushel, Frank M.;Sali, Andrej;Shoichet, Brian K.;Sweedler, Jonathan V.
酶功能倡议(EFI)是最近建立的，目的是解决为细菌基因组计划中发现的酶分配可靠功能的挑战；在这个当前的主题中，我们回顾了EFI的结构和操作。EFI包括超家族/基因组、蛋白质、结构、计算和数据/传播核心，为可靠地预测未知酶的体外功能提供了基础。从五个功能不同的超家族(氨基水解酶、烯醇化酶、谷胱甘肽转移酶、卤代烷酸脱卤酶和类异戊二烯合酶)中选择初始的功能分配目标，并通过五个超家族特异的桥联项目来实验验证预测的体外酶活性。EFI还包括微生物学核心，该核心评估体外酶功能的体内背景并确认EFI的功能预测。EFI向科学界提供的成果包括：1)为基因组项目(目标选择、蛋白质生产、结构确定、计算、实验酶学、微生物学和基于结构的注释)中发现的未知酶的功能分配开发一种大规模、多学科的基于序列/结构的战略；2)通过出版物、合作、研讨会和研讨会向社区传播该战略；3)使用该战略的计算和生物信息学工具；4)为酶的生产和表征提供实验方案和/或试剂；以及5)通过EFI的网站enzmeunction.org传播数据。多学科功能分配战略的实现将开始定义自然界中存在的全部代谢多样性，并将影响基本的生化和进化理解，以及对工业、医药和制药工作至关重要的广泛应用。
The Enzyme Function Initiative (EFI) was recently established to address the challenge of assigning reliable functions to enzymes discovered in bacterial genome projects; in this Current Topic we review the structure and operations of the EFI. The EFI includes the Superfamily/Genome, Protein, Structure, Computation, and Data/Dissemination Cores that provide the infrastructure for reliably predicting the in vitro functions of unknown enzymes. The initial targets for functional assignment are selected from five functionally diverse superfamilies (amidohydrolase, enolase, glutathione transferase, haloalkanoic acid dehalogenase, and isoprenoid synthase), with five superfamily-specific Bridging Projects experimentally testing the predicted in vitro enzymatic activities. The EFI also includes the Microbiology Core that evaluates the in vivo context of in vitro enzymatic functions and confirms the functional predictions of the EFI. The deliverables of the EFI to the scientific community include: 1) development of a large-scale, multidisciplinary sequence/structure-based strategy for functional assignment of unknown enzymes discovered in genome projects (target selection, protein production, structure determination, computation, experimental enzymology, microbiology, and structure-based annotation); 2) dissemination of the strategy to the community via publications, collaborations, workshops, and symposia; 3) computational and bioinformatic tools for using the strategy; 4) provision of experimental protocols and/or reagents for enzyme production and characterization; and 5) dissemination of data via the EFI’s website, enzymefunction.org. The realization of multidisciplinary strategies for functional assignment will begin to define the full metabolic diversity that exists in nature and will impact basic biochemical and evolutionary understanding, as well as a wide range of applications of central importance to industrial, medicinal and pharmaceutical efforts.
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通过同源性建模和虚拟筛选引导的二肽分配酶酶促功能的发现。
DOI：
10.1016/j.str.2008.08.015
发表时间：
2008-11-12
期刊：
Structure (London, England : 1993)
影响因子：
--
作者：
Kalyanaraman C;Imker HJ;Fedorov AA;Fedorov EV;Glasner ME;Babbitt PC;Almo SC;Gerlt JA;Jacobson MP
通讯作者：
Jacobson MP
影响因子：
12.3
作者：
Brown, Shoshana D;Gerlt, John A;Seffernick, Jennifer L;Babbitt, Patricia C
通讯作者：
Babbitt, Patricia C
影响因子：
4.3
作者：
Atkinson HJ;Babbitt PC
通讯作者：
Babbitt PC
影响因子：
15
作者：
Kamat SS;Fan H;Sauder JM;Burley SK;Shoichet BK;Sali A;Raushel FM
通讯作者：
Raushel FM
影响因子：
--
作者：
Cummings, Maxwell D.;Farnum, Michael A.;Nelen, Marina I.
通讯作者：
Nelen, Marina I.