1
|
Fang Y, Liu F, Shi Y, Yang T, Liang C, Xin Y, Gu Z, Shi G, Zhang L. Hotspots and Mechanisms of Action of the Thermostable Framework of a Microbial Thermolipase. ACS Synth Biol 2022; 11:3460-3470. [PMID: 36173803 DOI: 10.1021/acssynbio.2c00360] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Abstract
The lipase TrLipB from Thermomicrobium roseum is highly thermostable. However, its thermostable skeleton and mechanism of action should be investigated for industrial applications. Toward this, TrLipB was crystallized using the hanging-drop vapor diffusion method and subjected to X-ray diffraction at 2.0 Å resolution in this study. The rigid sites, such as the prolines on the relatively flexible loops on the enzyme surface, were scanned. Soft substitutions of these sites were designed using both molecular dynamics (MD) simulation and site-directed mutagenesis. The thermostability of several substitutions decreased markedly, while the catalytic efficiencies of the P9G, P127G, P194G, and P300G mutants reduced substantially; additionally, the thermostable framework of the double mutant, P194G/P300G, was considerably perturbed. However, the substitutions on the lid of the enzyme, including P49G and P48G, promoted the catalytic efficiency to approximately 150% and slightly enhanced the thermostability below 80 °C. In MD simulations, the P100G, P194G, P100G/P194G, P194G/P300G, and P100G/P194G/P300G mutants showed high B-factors and RMSD values, whereas the secondary structures, radius of gyration, H-bonds, and solvent accessible surface areas of these mutants were markedly affected. Our observations will assist in understanding the natural framework of a stable lipase, which might contribute to its industrial applications.
Collapse
Affiliation(s)
- Yakun Fang
- National Engineering Research Center for Cereal Fermentation and Food Biomanufacturing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China.,Jiangsu Provincial Engineering Research Center for Bioactive Product Processing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China
| | - Fan Liu
- National Engineering Research Center for Cereal Fermentation and Food Biomanufacturing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China.,Jiangsu Provincial Engineering Research Center for Bioactive Product Processing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China
| | - Yi Shi
- National Engineering Research Center for Cereal Fermentation and Food Biomanufacturing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China.,Jiangsu Provincial Engineering Research Center for Bioactive Product Processing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China
| | - Ting Yang
- Wuxi Food Safety Inspection and Test Center, Technology Innovation Center of Special Food for State Market Regulation, Wuxi, Jiangsu 214122, P.R. China
| | - Chaojuan Liang
- National Engineering Research Center for Cereal Fermentation and Food Biomanufacturing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China.,Jiangsu Provincial Engineering Research Center for Bioactive Product Processing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China
| | - Yu Xin
- National Engineering Research Center for Cereal Fermentation and Food Biomanufacturing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China.,Jiangsu Provincial Engineering Research Center for Bioactive Product Processing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China
| | - Zhenghua Gu
- National Engineering Research Center for Cereal Fermentation and Food Biomanufacturing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China.,Jiangsu Provincial Engineering Research Center for Bioactive Product Processing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China
| | - Guiyang Shi
- National Engineering Research Center for Cereal Fermentation and Food Biomanufacturing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China.,Jiangsu Provincial Engineering Research Center for Bioactive Product Processing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China
| | - Liang Zhang
- National Engineering Research Center for Cereal Fermentation and Food Biomanufacturing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China.,Jiangsu Provincial Engineering Research Center for Bioactive Product Processing, Jiangnan University, Wuxi, Jiangsu 214122, P.R. China
| |
Collapse
|
3
|
Qin W, Xie SX, Zhang J, Zhao D, He CX, Li HJ, Xing L, Li PQ, Jin X, Yin DC, Cao HL. An Analysis on Commercial Screening Kits and Chemical Components in Biomacromolecular Crystallization Screening. CRYSTAL RESEARCH AND TECHNOLOGY 2019. [DOI: 10.1002/crat.201900076] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Wei Qin
- Shaanxi Key Laboratory of Ischemic Cardiovascular Disease; Shaanxi Key Laboratory of Brain Disorders; Institute of Basic and Translational Medicine; Xi'an Medical University; Xi'an 710021 P. R. China
| | - Si-Xiao Xie
- Key Laboratory for Space Bioscience & Biotechnology; School of Life Sciences, Northwestern Polytechnical University; Xi'an 710072 P. R. China
| | - Jie Zhang
- Shaanxi Key Laboratory of Ischemic Cardiovascular Disease; Shaanxi Key Laboratory of Brain Disorders; Institute of Basic and Translational Medicine; Xi'an Medical University; Xi'an 710021 P. R. China
| | - Dong Zhao
- Shaanxi Key Laboratory of Ischemic Cardiovascular Disease; Shaanxi Key Laboratory of Brain Disorders; Institute of Basic and Translational Medicine; Xi'an Medical University; Xi'an 710021 P. R. China
| | - Chun-Xia He
- Shaanxi Key Laboratory of Ischemic Cardiovascular Disease; Shaanxi Key Laboratory of Brain Disorders; Institute of Basic and Translational Medicine; Xi'an Medical University; Xi'an 710021 P. R. China
| | - Hui-Jin Li
- Shaanxi Key Laboratory of Ischemic Cardiovascular Disease; Shaanxi Key Laboratory of Brain Disorders; Institute of Basic and Translational Medicine; Xi'an Medical University; Xi'an 710021 P. R. China
| | - Lu Xing
- Shaanxi Key Laboratory of Ischemic Cardiovascular Disease; Shaanxi Key Laboratory of Brain Disorders; Institute of Basic and Translational Medicine; Xi'an Medical University; Xi'an 710021 P. R. China
| | - Peng-Quan Li
- Shaanxi Key Laboratory of Ischemic Cardiovascular Disease; Shaanxi Key Laboratory of Brain Disorders; Institute of Basic and Translational Medicine; Xi'an Medical University; Xi'an 710021 P. R. China
| | - Xi Jin
- Shaanxi Key Laboratory of Ischemic Cardiovascular Disease; Shaanxi Key Laboratory of Brain Disorders; Institute of Basic and Translational Medicine; Xi'an Medical University; Xi'an 710021 P. R. China
| | - Da-Chuan Yin
- Shaanxi Key Laboratory of Ischemic Cardiovascular Disease; Shaanxi Key Laboratory of Brain Disorders; Institute of Basic and Translational Medicine; Xi'an Medical University; Xi'an 710021 P. R. China
- Key Laboratory for Space Bioscience & Biotechnology; School of Life Sciences, Northwestern Polytechnical University; Xi'an 710072 P. R. China
| | - Hui-Ling Cao
- Shaanxi Key Laboratory of Ischemic Cardiovascular Disease; Shaanxi Key Laboratory of Brain Disorders; Institute of Basic and Translational Medicine; Xi'an Medical University; Xi'an 710021 P. R. China
| |
Collapse
|