Divergence of substrate specificity and function in the Escherichia coli hotdog-fold thioesterase paralogs YdiI and YbdB.
Divergence of substrate specificity and function in the Escherichia coli hotdog-fold thioesterase paralogs YdiI and YbdB.
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DOI：
10.1021/bi500333m
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发表时间：
2014-07-29
期刊：
影响因子：
2.9
通讯作者：
Dunaway-Mariano D
中科院分区：
文献类型：
--
作者：
Latham JA;Chen D;Allen KN;Dunaway-Mariano D
本文中描述的工作及其配套论文（Wu，R.，莱瑟姆，J. A.，Chen，D.，中国农业科学院，法雷利，J.，赵，H.，马修斯，K.艾伦，K. N.，和Dunaway-Mariano，D.（2014）大肠杆菌热狗折叠硫酯酶Paralogs YdiI和YbdB的结构和催化作用。Biochemistry，DOI：10.1021/bi 500334 v），重点研究了大肠杆菌一对旁系同源的热狗折叠超家族硫酯酶的进化。coli，YbdB和YdiI，它们共享高水平的序列同一性，但执行不同的生物学功能（即，分别是肠杆菌素生物合成途径中2，3-二羟基苯甲酰基-holoEntB的校对者和甲萘醌生物合成途径中1，4-二羟基萘甲酰基-CoA水解步骤的催化剂）。硫酯代谢物文库的体外底物活性筛选显示，YbdB对苯甲酰基-holoEntB和苯甲酰基-CoA底物表现出高活性，对酰基-CoA硫酯表现出边缘活性，对1，4-二羟基萘甲酰基-CoA没有活性。另一方面，YdiI对其生理底物表现出高水平的活性，对广泛的酰基-CoA硫酯具有显著的活性，对苯甲酰基-holoEntB具有最小的活性。这些结果被解释为底物混杂，促进YbdB和YdiI进化，并在底物偏好，这与他们假设的生物功能的分歧的证据。Ydi I对甲萘醌生物合成途径的支持通过证明大肠杆菌的厌氧生长减少而得到证实。coliydiI基因敲除突变体（vs.野生型E.大肠杆菌）在电子受体富马酸盐存在下对葡萄糖的作用。生物信息学分析显示，YbdB直系同源物存在小的生物学范围（即，限于肠杆菌目）相对于Ydi I直向同源物的表达。本文详细介绍的YbdB和YdiI底物特异性的差异为配套论文中报告的结构分析奠定了基础。
The work described in this paper, and its companion paper (Wu, R., Latham, J. A., Chen, D., Farelli, J., Zhao, H., Matthews, K. Allen, K. N., and Dunaway-Mariano, D. (2014) Structure and Catalysis in the Escherichia coli Hotdog-fold Thioesterase Paralogs YdiI and YbdB. Biochemistry, DOI: 10.1021/bi500334v), focuses on the evolution of a pair of paralogous hotdog-fold superfamily thioesterases of E. coli, YbdB and YdiI, which share a high level of sequence identity but perform different biological functions (viz., proofreader of 2,3-dihydroxybenzoyl-holoEntB in the enterobactin biosynthetic pathway and catalyst of the 1,4-dihydoxynapthoyl-CoA hydrolysis step in the menaquinone biosynthetic pathway, respectively). In vitro substrate activity screening of a library of thioester metabolites showed that YbdB displays high activity with benzoyl-holoEntB and benzoyl-CoA substrates, marginal activity with acyl-CoA thioesters, and no activity with 1,4-dihydoxynapthoyl-CoA. YdiI, on the other hand, showed a high level of activity with its physiological substrate, significant activity toward a wide range of acyl-CoA thioesters, and minimal activity toward benzoyl-holoEntB. These results were interpreted as evidence for substrate promiscuity that facilitates YbdB and YdiI evolvability, and divergence in substrate preference, which correlates with their assumed biological function. YdiI support of the menaquinone biosynthetic pathway was confirmed by demonstrating reduced anaerobic growth of the E. coliydiI-knockout mutant (vs wild-type E. coli) on glucose in the presence of the electron acceptor fumarate. Bioinformatic analysis revealed that a small biological range exists for YbdB orthologs (i.e., limited to Enterobacteriales) relative to that of YdiI orthologs. The divergence in YbdB and YdiI substrate specificity detailed in this paper set the stage for their structural analyses reported in the companion paper.
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影响因子：
3.2
作者：
Chen, Minjiao;Ma, Xinyu;Guo, Zhihong
通讯作者：
Guo, Zhihong
影响因子：
4.8
作者：
De lay, Nicholas R.;Cronan, John E.
通讯作者：
Cronan, John E.
大肠杆菌K-12的构造框架，单基因敲除突变体：Keio Collection。
影响因子：
9.9
作者：
通讯作者：
--
影响因子：
5.1
作者：
Sandy M;Butler A
通讯作者：
Butler A
DOI：
10.1073/pnas.78.9.5440
发表时间：
1981-01-01
期刊：
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA-BIOLOGICAL SCIENCES
影响因子：
--
作者：
CRONAN, JE;KLAGES, AL
通讯作者：
KLAGES, AL