Article
Biochemical Research Methods
Pil-Won Seo, Suk-Youl Park, Andreas Hofmann, Jeong-Sun Kim
Summary: Peptidoglycan is a crucial component of bacterial cell walls, and the enzymes involved in its biosynthesis are potential targets for novel antibacterial drugs. The crystal structure of Mycobacterium bovis MurC reveals a three-domain architecture for substrate binding, with unique features such as the ATP-binding loop conformation and interactions between the UDP-binding domain and substrate analogs. These findings suggest that UNAG analogs could potentially inhibit the catalytic activity of bacterial MurC.
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Ya Zhang, Weizhong Chen, Di Wu, Yushi Liu, Zhaowei Wu, Jian Li, Shu-Yu Zhang, Quanjiang Ji
Summary: This study deciphered the molecular mechanism of the cell wall recycling process regulated by MurR in E. coli, which is important for bacterial survival in nutrient-limited conditions and antibiotic resistance.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Multidisciplinary Sciences
Che A. Stafford, Alicia-Marie Gassauer, Carina C. de Oliveira Mann, Maria C. Tanzer, Evelyn Fessler, Benedikt Wefers, Dennis Nagl, Gunnar Kuut, Karolina Sulek, Catherine Vasilopoulou, Sophia J. Schwojer, Andreas Wiest, Marie K. Pfautsch, Wolfgang Wurst, Monica Yabal, Thomas Frohlich, Matthias Mann, Nicolas Gisch, Lucas T. Jae, Veit Hornung
Summary: NAGK plays a critical role in the immunostimulatory activity of MDP by directly phosphorylating the N-acetylmuramic acid moiety of MDP to trigger the functionality of NOD2. This finding reveals a link between amino sugar metabolism and innate immunity to bacterial cell walls.
Article
Microbiology
Dmitri Pismennoi, Anna Kattel, Isma Belouah, Ranno Nahku, Raivo Vilu, Eeva-Gerda Kobrin
Summary: This study introduces a new high-throughput method to quantify the concentration of peptidoglycan in Gram-positive and Gram-negative bacteria, using acidic hydrolysis and hydrophilic interaction liquid chromatography coupled with mass spectrometry (HILIC-MS).
Article
Chemistry, Medicinal
Kimberly A. Wodzanowski, Stephen N. Hyland, Sreedevi Chinthamani, Liam-Michael D. Sandles, Kiyonobu Honma, Ashu Sharma, Catherine L. Grimes
Summary: In this study, the recycling potential of Tannerella forsythia for NAM uptake was explored. By modifying the cell wall structure and incorporating NAM analogues, the visualization of peptidoglycan was achieved. Furthermore, homologues of NAM recycling enzymes were identified in T. forsythia and successfully transformed into Escherichia coli, providing a useful tool for studying NAM recycling and peptidoglycan scavenging pathways.
ACS INFECTIOUS DISEASES
(2022)
Article
Biochemistry & Molecular Biology
Matthew E. Griffin, Taku Tsukidate, Howard C. Hang
Summary: The characterization of microbiota mechanisms in health and disease has led to an increased focus on pattern recognition receptors as targets for immunotherapy. Recent studies on Enterococcus species identified peptidoglycan remodeling and NOD2 activation as key mechanisms for enhancing immune checkpoint inhibitor therapy. Inspired by this research, we developed N-arylpyrazole dipeptides as novel NOD2 agonists through in silico ligand screening. Our enantiomer-specific N-arylpyrazole NOD2 agonist effectively promotes immune checkpoint inhibitor therapy and requires NOD2 activity in vivo, offering new therapeutic leads and adjuvants for NOD2-responsive diseases.
ACS CHEMICAL BIOLOGY
(2023)
Article
Chemistry, Medicinal
Kimberly A. Wodzanowski, Stephen N. Hyland, Sreedevi Chinthamani, Liam-Michael D. Sandles, Kiyonobu Honma, Ashu Sharma, Catherine L. Grimes
Summary: This article explores the potential recycling of NAM by T. forsythia and identifies enzyme homologues that are involved in this process. By genetically transforming and modifying the bacteria, non-natural NAM analogues were efficiently incorporated into the peptidoglycan backbone and visualized. This strain will be beneficial for further studies on the pathways of NAM recycling and peptidoglycan scavenging in T. forsythia and other cohabiting bacteria.
ACS INFECTIOUS DISEASES
(2022)
Article
Biochemistry & Molecular Biology
Ankit Maurya, Pradeep Sharma, Prashant K. Singh, V. Viswanathan, Punit Kaur, Sujata Sharma, Tej P. Singh
Summary: The short peptidoglycan recognition protein (PGRP-S) of the innate immune system recognizes invading microbes through binding to their cell wall molecules. The structure of the complex of camel PGRP-S (CPGRP-S) with hexanoic acid reveals how PGRP-S binds to bacterial cell wall molecules.
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2023)
Article
Chemistry, Multidisciplinary
Justin E. Silpe, Emily P. Balskus
Summary: The gut hosts a large number of microbes that significantly impact human health, but our understanding of the chemical compounds they produce and their effects on host biology is still in its early stages. Progress in decoding and manipulating this chemical language with diverse expertise could potentially be the key to combating certain human diseases.
ACS CENTRAL SCIENCE
(2021)
Article
Chemistry, Multidisciplinary
Xin Zhao, Ruiqi Fang, Fengliang Wang, Yingwei Li
Summary: A newly developed precise locating carbonization strategy is reported for the fabrication of 21 kinds of dual-metal single-atom catalysts with N, S co-coordinated configurations. The CoN3S1/CuN4@NC catalyst shows remarkable performance in O-2 activation and enables a spontaneous process through its dynamic configuration, significantly outperforming the CoN4/CuN4@NC and CoN3S1@NC counterparts. Hence, CoN3S1/CuN4@NC exhibits attractive performance in the domino synthesis of natural flavone and 19 kinds of derivatives.
Article
Multidisciplinary Sciences
Jeffrey S. Rush, Prakash Parajuli, Alessandro Ruda, Jian Li, Amol Arunrao Pohane, Svetlana Zamakhaeva, Mohammad M. Rahman, Jennifer C. Chang, Artemis Gogos, Cameron W. Kenner, Gerard Lambeau, Michael J. Federle, Konstantin Korotkov, Goran Widmalm, Natalia Korotkova
Summary: The study characterizes the linkage between the polysaccharide GAC and peptidoglycan in the cell wall of Group A Streptococcus, a bacterial pathogen. It identifies a protein, PplD, that deacetylates the linkage and protects the pathogen against host cationic antimicrobial proteins.
NATURE COMMUNICATIONS
(2022)
Article
Mechanics
Zi Ding, Zhi Qin, Marcin Buchowiecki, Linhua Liu
Summary: In this study, theoretical investigations were conducted to obtain collision data between nitrogen (N) and nitrogen ion (N+), including scattering cross sections and collision integrals. The potential energy curves of N2+ were obtained using the ab initio method and used to calculate resonant charge exchange and elastic cross sections. The collision integrals for N(S-4)-N+(P-3) and N(S-4)-N+(D-1) interactions were computed, revealing the importance of elastic collision process at low temperatures. This is the first calculation of cross sections and collision integrals for the N(S-4)-N+(D-1) interaction using ab initio potential energy points, and the obtained results are crucial for modeling the transport properties of related plasmas.
Article
Biochemistry & Molecular Biology
Shuo Du, Guopeng Wang, Zhiying Zhang, Chengying Ma, Ning Gao, Junyu Xiao
Summary: In this study, the structure of the Drosophila melanogaster GNPTAB homolog, DmGNPTAB, was determined and the catalytic domain and putative donor substrate-binding site were identified. The functional requirements of critical residues in human GNPTAB were validated using GNPTAB-knockout cells. Furthermore, we found that the homodimer formed by DmGNPTAB is evolutionarily conserved and disrupting the dimer interface affects the maturation and activity of human GNPTAB.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2022)
Article
Biophysics
Ziyad Tariq Muhseen, Sajjad Ahmad, Guanglin Li
Summary: In this study, a novel and eco-friendly candidate for insecticide development targeting the UDP-N-acetylglucosamine pyrophosphorylase enzyme of Aedes aegypti with natural terpenes was proposed. Molecular dynamics simulations and binding free energies analysis revealed three compounds with stable interactions with the active binding-site residues, suggesting potential as insecticide leads. The FDA approved drug NPACT00839 (Paclitaxel) showed promising results and could be further optimized for experimental testing.
COLLOIDS AND SURFACES B-BIOINTERFACES
(2021)
Article
Biochemical Research Methods
Daniel E. Mattox, Chris Bailey-Kellogg
Summary: The study comprehensively investigates specificity-conferring features of lectin-glycan interactions and provides a novel approach for predicting the identity of bound glycans and understanding lectin specificity through systematic characterization and analysis.
PLOS COMPUTATIONAL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Prakash Kumar Shulda, Lovely Gautam, Mau Sinha, Punit Kaur, Sujata Sharma, Tej P. Singh
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2015)
Article
Dermatology
Suresh Sadhasivam, Mau Sinha, Swamini Saini, Simar Preet Kaur, Tanvi Gupta, Shiladitya Sengupta, Shamik Ghosh, Kabir Sardana
DERMATOLOGIC THERAPY
(2016)
Article
Dermatology
Mau Sinha, Suresh Sadhasivam, Anamika Bhattacharyya, Shilpi Jain, Shamik Ghosh, Kenneth A. Arndt, Jeffrey S. Dover, Shiladitya Sengupta
SEMINARS IN CUTANEOUS MEDICINE AND SURGERY
(2016)
Article
Dermatology
Sumana Ghosh, Mau Sinha, Anamika Bhattacharyya, Suresh Sadhasivam, Jayasundarnaidu Megha, Sreedhar Reddy, Swamini Saini, Himanshi Singh, Deepak Kumar, Simar Preet Kaur, Mallika Mishra, Dandamudi Usharani, Shamik Ghosh, Shiladitya Sengupta
JOURNAL OF INVESTIGATIVE DERMATOLOGY
(2018)
Article
Biochemistry & Molecular Biology
Avinash Singh, Ashok Kumar, Lovely Gautam, Pradeep Sharma, Mau Sinha, Asha Bhushan, Punit Kaur, Sujata Sharma, Ashish Arora, Tej P. Singh
BIOCHEMICAL JOURNAL
(2014)
Review
Biochemistry & Molecular Biology
Sujata Sharma, Sanket Kaushik, Mau Sinha, Gajraj Singh Kushwaha, Avinash Singh, Juhi Sikarwar, Anshul Chaudhary, Akshita Gupta, Punit Kaur, Tej P. Singh
BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
(2014)
Article
Biochemistry & Molecular Biology
Nilisha Rastogi, Avinash Singh, Sada Nand Pandey, Mau Sinha, Asha Bhushan, Punit Kaur, Sujata Sharma, Tej P. Singh
Review
Cell Biology
Mau Sinha, Lovely Gautam, Prakash Kumar Shukla, Punit Kaur, Sujata Sharma, Tej P. Singh
MEDIATORS OF INFLAMMATION
(2013)
Article
Multidisciplinary Sciences
Pradeep Sharma, Divya Dube, Mau Sinha, Savita Yadav, Punit Kaur, Sujata Sharma, Tej P. Singh
Article
Multidisciplinary Sciences
Sanket Kaushik, Nagendra Singh, Shavait Yamini, Avinash Singh, Mau Sinha, Ashish Arora, Punit Kaur, Sujata Sharma, Tej P. Singh
Article
Multidisciplinary Sciences
Nilisha Rastogi, Nitish Nagpal, Hammad Alam, Sadanand Pandey, Lovely Gautam, Mau Sinha, Kouichirou Shin, Nikhat Manzoor, Jugsharan S. Virdi, Punit Kaur, Sujata Sharma, Tej P. Singh
Article
Biochemistry & Molecular Biology
Gajraj Singh Kushwaha, Shavait Yamini, Mukesh Kumar, Mau Sinha, Punit Kaur, Sujata Sharma, Tej P. Singh
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
(2013)
Review
Multidisciplinary Sciences
Mau Sinha, Rashmi Prabha Singh, Gajraj Singh Kushwaha, Naseer Iqbal, Avinash Singh, Sanket Kaushik, Punit Kaur, Sujata Sharma, Tej P. Singh
SCIENTIFIC WORLD JOURNAL
(2014)
Article
Biochemistry & Molecular Biology
Avinash Singh, Lovely Gautam, Mau Sinha, Asha Bhushan, Punit Kaur, Sujata Sharma, T. P. Singh
Article
Pharmacology & Pharmacy
Rohit Batra, Suresh Sadhasivam, Swamini Saini, Swati Gupta, Rahul Kumar Singh Bisen, Mau Sinha, Shamik Ghosh, Shilpi Jain