Citation: Wang Wen, Tekcham Dinesh Singh, Yan Min, Wang Zhichao, Qi Huan, Liu Xiaolong, Piao Hai-Long. Biochemical reactions in metabolite-protein interaction[J]. Chinese Chemical Letters, ;2018, 29(5): 645-647. doi: 10.1016/j.cclet.2017.10.002 shu

Biochemical reactions in metabolite-protein interaction

Wang Wen ^a,b,c ,
Tekcham Dinesh Singh ^a ,
Yan Min ^a,b,c ,
Wang Zhichao ^a,b,c ,
Qi Huan ^a ,
Liu Xiaolong ^a ,
Piao Hai-Long ^a,b,,

a.
Scientific Research Center for Translational Medicine, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China
b.
University of Chinese Academy of Sciences, Beijing 100049, China
c.
CAS Key Laboratory of Separation Science for Analytical Chemistry, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian 116023, China

Corresponding author: Piao Hai-Long, hpiao@dicp.ac.cn
Received Date: 12 July 2017
Revised Date: 21 September 2017
Accepted Date: 10 October 2017
Available Online: 13 May 2017

Figures(1)

Active endogenous metabolites regulate the viability of cells. This process is controlled by a series of interactions between small metabolites and large proteins. Previously, several studies had reported that metabolite regulates the protein functions, such as diacylglycerol to protein kinase C, lactose regulation of the lac repressor, and HIF-1α stabilization by 2-hydroxyglutarate. However, decades old traditional biochemical methods are insufficient to systematically investigate the bio-molecular reactions for a highthroughput discovery. Here, we have reviewed an update on the recently developed chemical proteomics called activity-based protein profiling (ABPP). ABPP is able to identify proteins interacted either covalently or non-covalently with metabolites significantly. Thus, ABPP will facilitate the characterization of specific metabolite regulating proteins in human disease progression.
- Post translational modification,
- Activity-based protein profiling,
- Metabolite-protein interaction,
- Chemical probe,
- Mass spectrometry
1. [1]
  D.J. Leeming, A.C. Bay-Jensen, E. Vassiliadis, et al., Biomarkers 16(2011) 193-205. doi: 10.3109/1354750X.2011.557440
2. [2]
  X. Li, M. Snyder, Bioessays 33(2011) 485-489. doi: 10.1002/bies.v33.7
3. [3]
  W. Wei, A.G. Schwaid, X. Wang, et al., Cell Metab. 23(2016) 479-491. doi: 10.1016/j.cmet.2015.12.010
4. [4]
  W. Gilbert, B. Mullerhi, Proc. Natl. Acad. Sci. U. S. A. 56(1966) 1891-1898. doi: 10.1073/pnas.56.6.1891
5. [5]
  P. Magotti, I. Bauer, M. Igarashi, et al., Structure 23(2015) 598-604. doi: 10.1016/j.str.2014.12.018
6. [6]
  R.A. Heyman, D.J. Mangelsdorf, J.A. Dyck, et al., Cell 68(1992) 397-406. doi: 10.1016/0092-8674(92)90479-V
7. [7]
  X. Li, T.A. Gianoulis, K.Y. Yip, M. Gerstein, M. Snyder, Cell 143(2010) 639-650. doi: 10.1016/j.cell.2010.09.048
8. [8]
  X. Xiao, J.J. Tang, C. Peng, et al., Mol. Cell 66(2017) 154-162 e110. doi: 10.1016/j.molcel.2017.02.015
9. [9]
  G.X. Yang, X. Li, M. Snyder, Methods 57(2012) 459-466. doi: 10.1016/j.ymeth.2012.06.013
10. [10]
  B.F. Cravatt, A.T. Wright, J.W. Kozarich, Annu. Rev. Biochem. 77(2008) 383-414. doi: 10.1146/annurev.biochem.75.101304.124125
11. [11]
  J.J. Hulce, A.B. Cognetta, M.J. Niphakis, S.E. Tully, B.F. Cravatt, Nat. Methods 10(2013) 259-264. doi: 10.1038/nmeth.2368
12. [12]
  M.J. Niphakis, K.M. Lum, A.B. Cognetta, et al., Cell 161(2015) 1668-1680. doi: 10.1016/j.cell.2015.05.045
13. [13]
  S. Zhuang, Q. Li, L. Cai, C. Wang, X. Lei, ACS Cent Sci. 3(2017) 501-509. doi: 10.1021/acscentsci.7b00134
14. [14]
  N.P. Westcott, J.P. Fernandez, H. Molina, H.C. Hang, Nat. Chem. Biol. 13(2017) 302-312. doi: 10.1038/nchembio.2280
1. [1]
  Tian Feng , Yun-Ling Gao , Di Hu , Ke-Yu Yuan , Shu-Yi Gu , Yao-Hua Gu , Si-Yu Yu , Jun Xiong , Yu-Qi Feng , Jie Wang , Bi-Feng Yuan . Chronic sleep deprivation induces alterations in DNA and RNA modifications by liquid chromatography-mass spectrometry analysis. Chinese Chemical Letters, 2024, 35(8): 109259-. doi: 10.1016/j.cclet.2023.109259
2. [2]
  Cheng Guo , Xiaoxiao Zhang , Xiujuan Hong , Yiqiu Hu , Lingna Mao , Kezhi Jiang . Graphene as adsorbent for highly efficient extraction of modified nucleosides in urine prior to liquid chromatography-tandem mass spectrometry analysis. Chinese Chemical Letters, 2024, 35(4): 108867-. doi: 10.1016/j.cclet.2023.108867
3. [3]
  Junmeng Luo , Qiongqiong Wan , Suming Chen . Chemistry-driven mass spectrometry for structural lipidomics at the C=C bond isomer level. Chinese Chemical Letters, 2025, 36(1): 109836-. doi: 10.1016/j.cclet.2024.109836
4. [4]
  Keqiang Shi , Xiujuan Hong , Dongyan Xu , Tao Pan , Huiwen Wang , Hongru Feng , Cheng Guo , Yuanjiang Pan . Analysis of RNA modifications in peripheral white blood cells from breast cancer patients by mass spectrometry. Chinese Chemical Letters, 2025, 36(3): 110079-. doi: 10.1016/j.cclet.2024.110079
5. [5]
  Yao-Hua Gu , Yu Chen , Qing Li , Neng-Bin Xie , Xue Xing , Jun Xiong , Min Hu , Tian-Zhou Li , Ke-Yu Yuan , Yu Liu , Tang Tang , Fan He , Bi-Feng Yuan . Metabolome profiling by widely-targeted metabolomics and biomarker panel selection using machine-learning for patients in different stages of chronic kidney disease. Chinese Chemical Letters, 2024, 35(11): 109627-. doi: 10.1016/j.cclet.2024.109627
6. [6]
  Yang Feng , Yang-Qing Tian , Yong-Qiang Zhao , Sheng-Jun Chen , Bi-Feng Yuan . Dynamic deformylation of 5-formylcytosine and decarboxylation of 5-carboxylcytosine during differentiation of mouse embryonic stem cells into mouse neurons. Chinese Chemical Letters, 2024, 35(11): 109656-. doi: 10.1016/j.cclet.2024.109656
7. [7]
  Qiongqiong Wan , Yanan Xiao , Guifang Feng , Xin Dong , Wenjing Nie , Ming Gao , Qingtao Meng , Suming Chen . Visible-light-activated aziridination reaction enables simultaneous resolving of C=C bond location and the sn-position isomers in lipids. Chinese Chemical Letters, 2024, 35(4): 108775-. doi: 10.1016/j.cclet.2023.108775
8. [8]
  Feng-Qing Huang , Yu Wang , Ji-Wen Wang , Dai Yang , Shi-Lei Wang , Yuan-Ming Fan , Raphael N. Alolga , Lian-Wen Qi . Chemical isotope labeling-assisted liquid chromatography-mass spectrometry enables sensitive and accurate determination of dipeptides and tripeptides in complex biological samples. Chinese Chemical Letters, 2024, 35(11): 109670-. doi: 10.1016/j.cclet.2024.109670
9. [9]
  Jie ZHANG , Xin LIU , Zhixin LI , Yuting PEI , Yuqi YANG , Huimin LI , Zhiqiang LIU . Assembling a luminescence silencing system based on post-synthetic modification strategy: A highly sensitive and selective turn-on metal-organic framework probe for ascorbic acid detection. Chinese Journal of Inorganic Chemistry, 2024, 40(4): 823-833. doi: 10.11862/CJIC.20230310
10. [10]
  Wenbi Wu , Yinchu Dong , Haofan Liu , Xuebing Jiang , Li Li , Yi Zhang , Maling Gou . Modification of plasma protein for bioprinting via photopolymerization. Chinese Chemical Letters, 2024, 35(8): 109260-. doi: 10.1016/j.cclet.2023.109260
11. [11]
  Wei Shao , Wanqun Zhang , Pingping Zhu , Wanqun Hu , Qiang Zhou , Weiwei Li , Kaiping Yang , Xisheng Wang . Design and Practice of Ideological and Political Cases in the Course of Instrument Analysis Experiment: Taking the GC-MS Experiment as an Example. University Chemistry, 2024, 39(2): 147-154. doi: 10.3866/PKU.DXHX202309048
12. [12]
  Ying Li , Long-Jie Wang , Yong-Kang Zhou , Jun Liang , Bin Xiao , Ji-Shen Zheng . An improved installation of 2-hydroxy-4-methoxybenzyl (iHmb) method for chemical protein synthesis. Chinese Chemical Letters, 2024, 35(5): 109033-. doi: 10.1016/j.cclet.2023.109033
13. [13]
  Chaochao Jin , Kai Li , Jiongpei Zhang , Zhihua Wang , Jiajing Tan . N,O-Bidentated difluoroboron complexes based on pyridine-ester enolates: Facile synthesis, post-complexation modification, optical properties, and applications. Chinese Chemical Letters, 2024, 35(9): 109532-. doi: 10.1016/j.cclet.2024.109532
14. [14]
  Han-Min Wang , Yan-Chen Li , Lu-Lu Sun , Ming-Ye Tang , Jia Liu , Jiahao Cai , Lei Dong , Jia Li , Yi Zang , Hai-Hao Han , Xiao-Peng He . Protein-encapsulated long-wavelength fluorescent probe hybrid for imaging lipid droplets in living cells and mice with non-alcoholic fatty liver. Chinese Chemical Letters, 2024, 35(11): 109603-. doi: 10.1016/j.cclet.2024.109603
15. [15]
  Lu Huang , Jiang Wang , Hong Jiang , Lanfang Chen , Huanwen Chen . On-line determination of selenium compounds in tea infusion by extractive electrospray ionization mass spectrometry combined with a heating reaction device. Chinese Chemical Letters, 2025, 36(1): 109896-. doi: 10.1016/j.cclet.2024.109896
16. [16]
  Yanhua Chen , Xian Ding , Jun Zhou , Zhaoying Wang , Yunhai Bo , Ying Hu , Qingce Zang , Jing Xu , Ruiping Zhang , Jiuming He , Fen Yang , Zeper Abliz . Plasma metabolomics combined with mass spectrometry imaging reveals crosstalk between tumor and plasma in gastric cancer genesis and metastasis. Chinese Chemical Letters, 2025, 36(1): 110351-. doi: 10.1016/j.cclet.2024.110351
17. [17]
  Haiyan Lu , Jiayue Ye , Yiping Wei , Hua Zhang , Konstantin Chingin , Vladimir Frankevich , Huanwen Chen . Tracing molecular margins of lung cancer by internal extractive electrospray ionization mass spectrometry. Chinese Chemical Letters, 2025, 36(2): 110077-. doi: 10.1016/j.cclet.2024.110077
18. [18]
  Gengchen Guo , Tianyu Zhao , Ruichang Sun , Mingzhe Song , Hongyu Liu , Sen Wang , Jingwen Li , Jingbin Zeng . Au-Fe₃O₄ dumbbell-like nanoparticles based lateral flow immunoassay for colorimetric and photothermal dual-mode detection of SARS-CoV-2 spike protein. Chinese Chemical Letters, 2024, 35(6): 109198-. doi: 10.1016/j.cclet.2023.109198
19. [19]
  Yixin Zhang , Ting Wang , Jixiang Zhang , Pengyu Lu , Neng Shi , Liqiang Zhang , Weiran Zhu , Nongyue He . Formation mechanism for stable system of nanoparticle/protein corona and phospholipid membrane. Chinese Chemical Letters, 2024, 35(4): 108619-. doi: 10.1016/j.cclet.2023.108619
20. [20]
  Mingqi Wang , Shixin Fa , Jiate Yu , Guoxian Zhang , Yi Yan , Qing Liu , Qiuyu Zhang . Light-controlled protein imprinted nanospheres with variable recognition specificity. Chinese Chemical Letters, 2025, 36(2): 110124-. doi: 10.1016/j.cclet.2024.110124

Get Citation

PDF

XML

Metrics

PDF Downloads(1)
Abstract views(942)
HTML views(41)

通讯作者: 陈斌, bchen63@163.com

1.
沈阳化工大学材料科学与工程学院沈阳 110142