Article
Chemistry, Multidisciplinary
Matthew N. Podgorski, Angus B. Keto, Tom Coleman, John B. Bruning, James J. De Voss, Elizabeth H. Krenske, Stephen G. Bell
Summary: This article examines the interaction and oxidation of molecules containing oxygen- and sulfur-containing heterocyclic groups with the bacterial enzyme CYP199A4. The enzyme predominantly oxidizes 4-(thiophen-2-yl)benzoic acid and 4-(thiophen-3-yl)benzoic acid through sulfoxidation, forming thiophene oxides that can then undergo Diels-Alder dimerization. Despite the closer proximity of the aromatic carbon atoms to the heme than the sulfur atoms, 4-(thiophen-3-yl)benzoic acid still shows a preference for sulfoxidation. The combination of enzyme structures, biochemical data, and theoretical calculations provides a detailed insight into the formation of metabolites from these heterocyclic compounds.
CHEMISTRY-A EUROPEAN JOURNAL
(2023)
Article
Biochemistry & Molecular Biology
Kiran-Kumar Shivaiah, Bryon Upton, Basil J. Nikolau
Summary: The AcCCase from Thermobifida fusca YX displays promiscuity in carboxylating different short chain acyl-CoA substrates, with mutations in the D427 residue of the AcCCB subunit affecting substrate specificity. The enzyme is composed of two catalytic subunits and a non-catalytic subunit, with the non-catalytic subunit facilitating holoenzyme assembly and activation of catalysis. The holoenzyme structure is primarily assembled from two subcomplexes and the residue D427 of AcCCB subunits plays a significant role in determining substrate specificity.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2021)
Article
Chemistry, Multidisciplinary
Tom Coleman, Daniel Z. Doherty, Ting Zhang, Matthew N. Podgorski, Ruihong Qiao, Joel H. Z. Lee, John B. Bruning, James J. De Voss, Weihong Zhou, Stephen G. Bell
Summary: The cytochrome P450 family of monooxygenase enzymes play important roles in oxidizing carbon-hydrogen bonds and other metabolic reactions. This study demonstrates that the CYP199A4 enzyme has regioselective hydroxylation activity at the benzylic carbon and exhibits different oxidation product distributions with different substrates.
CHEMISTRY-AN ASIAN JOURNAL
(2022)
Review
Oncology
Yu Wang, Weixing Yu, Sha Li, Dingyuan Guo, Jie He, Yugang Wang
Summary: Acetyl-CoA carboxylases (ACCs) are enzymes that play important roles in fatty acid synthesis and oxidation. ACC1 and ACC2 are two members of ACCs in mammals, with ACC1 being involved in various diseases such as cancer, diabetes, and obesity. ACC1 also has the ability to influence protein post-translational modifications. Therefore, studying ACC1 can provide insights into disease treatment and the development of specific inhibitors.
FRONTIERS IN ONCOLOGY
(2022)
Article
Multidisciplinary Sciences
Andrej Paluda, Adam J. Middleton, Claudia Rossig, Peter D. Mace, Catherine L. Day
Summary: This study reveals the mechanism of enzymatic activity regulation by elucidating the structure of Ark2C bound to both regulatory ubiquitin and activated E2-ubiquitin conjugate. It also identifies the charged loop that enhances activity and the mechanism of ubiquitin chain assembly.
NATURE COMMUNICATIONS
(2022)
Article
Multidisciplinary Sciences
Chia-Shin Yang, Tzu-Ping Ko, Chao-Jung Chen, Mei-Hui Hou, Yu-Chuan Wang, Yeh Chen
Summary: The authors present the structural and functional characterization of bacterial CD-NTases that synthesize cyclic dipyrimidines for phage resistance. They reveal a motif dictating pyrimidine selection and propose a sequential pathway for synthesizing cyclic di-UMP. These findings provide important insights into bacterial defense mechanisms and cellular regulation.
NATURE COMMUNICATIONS
(2023)
Article
Chemistry, Physical
Qiyi Ma, Haoran Yuan, Jianyong Mao, Jia Yao, Haoran Li
Summary: A homogeneous catalyst system FeCl3/DMSO was developed for the oxidation of alpha-substituted cyclohexanone to 6-oxohexanoic acid, a significant intermediate in the synthesis of (+)-biotin. The oxidation process achieved high conversion and selectivity using oxygen as the oxidant, showing advantages over traditional methods. The catalytic mechanism involves parallel reactions of oxidation and chlorination, and the FeCl3/DMSO system can be recycled with minimal yield loss.
APPLIED CATALYSIS A-GENERAL
(2021)
Article
Biochemistry & Molecular Biology
Dalibor Kosek, Alison B. Hickman, Rodolfo Ghirlando, Susu He, Fred Dyda
Summary: Copy-out/paste-in transposition is a major bacterial DNA mobility pathway that contributes significantly to the emergence of antibiotic resistance by upregulating downstream gene expression. This pathway requires both asymmetric and symmetric strand transfer steps and involves an unusual asymmetric dimeric transpososome during transposition.
Article
Chemistry, Applied
Tao Zhan, Xiao-Zhen Feng, Yun-Yun Cheng, Guo-Cheng Han, Zhencheng Chen, Heinz-Bernhard Kraatz
Summary: We developed a facile sensor by conjugating heme with gold nanoparticles on a glass carbon electrode for the ultrasensitive detection of biotin. This sensor exhibits a broad detection range and a low detection limit. The mechanism of biotin electrooxidation was elucidated through electrochemical analyses and calculations. The sensor shows excellent selectivity, reproducibility, and stability, making it suitable for practical applications.
Article
Chemistry, Analytical
Guojuan Chen, Ying Qin, Lei Jiao, Jiajia Huang, Yu Wu, Liuyong Hu, Wenling Gu, Dacheng Xu, Chengzhou Zhu
Summary: In this study, PdPt bimetallic nanozymes were used as efficient alternatives to natural enzymes in photoelectrochemical biosensing systems, leading to amplified signals and enhanced performance. By modifying photoactive CdS nanorods with PdPt bimetallic nanozymes, a sensitive PEC immunoassay for CEA detection was successfully constructed, achieving a wider linear range and lower detection limit. This research demonstrates the potential of using nanozymes for developing ultrasensitive PEC biosensors, with improved performance and signal amplification.
ANALYTICAL CHEMISTRY
(2021)
Article
Materials Science, Multidisciplinary
Xiaohui Xi, Guangqi Dong, Lingyu Wang, Jun Hu, Chunguang Shen, Jinliang Wang, Wei Xu
Summary: This study provides detailed evidence that linear defects are formed by the motion of Shockley partial dislocation on a close-packed plane, and these defects can serve as nucleation sites for martensitic transformation and limit the growth of a'-martensite laths.
MATERIALS & DESIGN
(2022)
Article
Chemistry, Physical
Hassan Monhemi, Bahareh Jalali
Summary: Enzyme denaturation in supercritical CO2 is not solely caused by lysine residues, but rather by surface charged and polar residues forming non-native hydrogen bonds with other residues. This leads to the destruction of essential native hydrogen bonds, affecting enzyme stability and activity. Increasing interactions among polar and charged residues and enhancing surface hydrophobicity can help stabilize enzymes in supercritical CO2.
JOURNAL OF MOLECULAR LIQUIDS
(2021)
Article
Biochemistry & Molecular Biology
Tzu-Ping Ko, Yu-Chuan Wang, Chia-Ling Tsai, Chia-Shin Yang, Mei-Hui Hou, Yeh Chen
Summary: The study presents the crystal structures of CD-NTase EcCdnD from Enter-obacter cloacae, showing significant structural variations compared to other CD-NTases. The enzyme is active on ATP or a mixture of ATP and GTP, with Mg2+ as the preferred metal cofactor. Based on structural analysis and comparison with other enzymes, a tentative catalytic pathway for EcCdnD in producing CTN is proposed.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Chemistry, Multidisciplinary
Zhi Chen, Hualei Wang, Lin Yang, Shuiqing Jiang, Dongzhi Wei
Summary: The study successfully modified a regio- and stereo-specific nitrilase to convert rac-ISBN to (S)-CMHA, a critical intermediate in the preparation of optically pure pregabalin. Through MM/PBSA method, hotspots Trp57 and Val134 were identified, leading to the generation of mutants with high enantioselectivity. The mutants obtained could potentially be used in the industrial production of optically pure pregabalin.
CHEMICAL COMMUNICATIONS
(2021)
Article
Cell Biology
Apurva A. Govande, Brianna Duncan-Lowey, James B. Eaglesham, Aaron T. Whiteley, Philip J. Kranzusch
Summary: The study identifies molecular rules controlling CD-NTase specificity, with correct nucleotide selection resulting in a thermostable protein-nucleotide complex. Specific patterns governing selectivity for each major bacterial CD-NTase clades are established. These results explain CD-NTase specificity and enable predictions of nucleotide second-messenger signals within diverse antiviral systems.
Correction
Multidisciplinary Sciences
Valerie A. Ray, Preston J. Hill, C. Kendall Stover, Sashwati Roy, Chandan K. Sen, Li Yu, Daniel J. Wozniak, Antonio DiGiandomenico
SCIENTIFIC REPORTS
(2018)
Article
Biochemistry & Molecular Biology
Igor Mochalkin, J. Richard Miller, Lakshmi Narasimhan, Venkataraman Thanabal, Paul Erdman, Philip B. Cox, J. V. N. Vara Prasad, Sandra Lightle, Michael D. Huband, C. Kendall Stover
ACS CHEMICAL BIOLOGY
(2009)
Article
Critical Care Medicine
Kathy N. Williams, Steven J. Brickner, Charles K. Stover, Tong Zhu, Adam Ogden, Rokeya Tasneen, Sandeep Tyagi, Jacques H. Grosset, Eric L. Nuermberger
AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE
(2009)
Article
Biochemical Research Methods
Hongliang Cai, Kelly Rose, Lan-Hsin Liang, Steve Dunham, Charles Stover
ANALYTICAL BIOCHEMISTRY
(2009)
Article
Microbiology
K. N. Williams, C. K. Stover, T. Zhu, R. Tasneen, S. Tyagi, J. H. Grosset, E. Nuermberger
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2009)
Article
Microbiology
L. Hua, J. J. Hilliard, Y. Shi, C. Tkaczyk, L. I. Cheng, X. Yu, V. Datta, S. Ren, H. Feng, R. Zinsou, A. Keller, T. O'Day, Q. Du, L. Cheng, M. Damschroder, G. Robbie, J. Suzich, C. K. Stover, B. R. Sellman
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2014)
Article
Chemistry, Multidisciplinary
Huiqing Li, Kai-For Mo, Qun Wang, C. Kendall Stover, Antonio DiGiandomenico, Geert-Jan Boons
CHEMISTRY-A EUROPEAN JOURNAL
(2013)
Article
Immunology
C. Tkaczyk, L. Hua, R. Varkey, Y. Shi, L. Dettinger, R. Woods, A. Barnes, R. S. MacGill, S. Wilson, P. Chowdhury, C. K. Stover, B. R. Sellman
CLINICAL AND VACCINE IMMUNOLOGY
(2012)
Article
Immunology
Antonio DiGiandomenico, Paul Warrener, Melissa Hamilton, Sandrine Guillard, Peter Ravn, Ralph Minter, Maria Margarita Camara, Vignesh Venkatraman, Randall S. MacGill, Jia Lin, Qun Wang, Ashley Elaine Keller, Jessica C. Bonnell, Mladen Tomich, Lutz Jermutus, Michael P. McCarthy, David A. Melnick, JoAnn A. Suzich, C. Kendall Stover
JOURNAL OF EXPERIMENTAL MEDICINE
(2012)
Article
Multidisciplinary Sciences
Christine Tkaczyk, Melissa M. Hamilton, Vivekananda Datta, Xiang Ping Yang, Jamese J. Hilliard, Geoffrey L. Stephens, Agnieszka Sadowska, Lei Hua, Terrence O'Day, Joann Suzich, Charles Kendall Stover, Bret R. Sellman
Article
Multidisciplinary Sciences
J. Richard Miller, Steve Dunham, Igor Mochalkin, Craig Banotai, Matthew Bowman, Susan Buist, Bill Dunkle, Debra Hanna, H. James Harwood, Michael D. Huband, Alla Karnovsky, Michael Kuhn, Chris Limberakis, Jia Y. Liu, Shawn Mehrens, W. Thomas Mueller, Lakshmi Narasimhan, Adam Ogden, Jeff Ohren, J. V. N. Vara Prasad, John A. Shelly, Laura Skerlos, Mark Sulavik, V. Hayden Thomas, Steve VanderRoest, LiAnn Wang, Zhigang Wang, Amy Whitton, Tong Zhu, C. Kendall Stover
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2009)
Article
Multidisciplinary Sciences
Valerie A. Ray, Preston J. Hill, Kendall C. Stover, Sashwati Roy, Chandan K. Sen, Li Yu, Daniel J. Wozniak, Antonio DiGiandomenico
SCIENTIFIC REPORTS
(2017)
Article
Microbiology
Khisimuzi E. Mdluli, Pamela R. Witte, Toni Kline, Adam W. Barb, Alice L. Erwin, Bryce E. Mansfield, Amanda L. McClerren, Michael C. Pirrung, L. Nathan Tumey, Paul Warrener, Christian R. H. Raetz, C. Kendall Stover
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2006)
Article
Microbiology
WR Schwan, P Warrener, E Keunz, CK Stover, KR Folger
INTERNATIONAL JOURNAL OF MEDICAL MICROBIOLOGY
(2005)