Browsing Molecular Biophysics Unit (MBU) by thesis submitted date"2024"
Now showing items 1-20 of 21
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Characterization of a Staphylococcus aureus multi-enzyme complex involved in the phenotypic switch and host-pathogen interactions
RNA homeostasis is maintained by synchronizing RNA synthesis and RNA degradation. These processes are synchronized to growth conditions and environmental stimuli, thus enabling bacterial survival in diverse environmental ... -
Characterizing the link between dynamics and function in proteins that violate the structure-function paradigm
The structure-function paradigm states that the three-dimensional structure of a protein is dictated by its amino acid sequence, which influences its function. However, this paradigm fails to explain the behaviour of ... -
Deep Mutational Scanning Analyses of Protein Stability and Function
Full text Embargo up to Sep 2026 Protein stability is critical to understanding protein function, folding, and interactions within living organisms. It plays a key role in protein engineering, where designing stable ... -
Deep mutational scanning to enhance immunogenicity and map antibody responses to HIV-1
Vaccines have proven effective against numerous viral diseases, yet the development of a successful vaccine for Human Immunodeficiency Virus (HIV-1) remains elusive. A key immunogen for vaccine design is the surface ... -
Design and characterization of stabilized mutants of the SARS-CoV-2 Receptor Binding Domain
The global pandemic caused by SARS-CoV-2 has resulted in millions of deaths worldwide, highlighting the urgent need for effective vaccines. The trimeric spike glycoprotein, particularly the receptor-binding domain (RBD), ... -
Design of Immunogens Derived from the Conserved Stem of Influenza Virus Hemagglutinin
Influenza viruses can cause respiratory illnesses and are very contagious, leading to either pandemics or seasonal epidemics and resulting in significant mortality and morbidity rates. The main symptoms of the influenza ... -
Design, Biophysical Characterization, and Serum Epitope Mapping of SARS-CoV-2 RBD Vaccine Immunogens
Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has been circulating in the human population for over four years. This has resulted in more than 770 million infections and ~7 million deaths to date. Multiple ... -
Determinants of protein stability and function inferred from saturation mutagenesis and next-generation sequencing
Proteins play a central role in all biological processes. Despite a similar underlying composition, they exhibit immense diversity in structures and functions, a subject of great interest. The research presented in this ... -
Distinct extracellular signatures of active-dendritic chemical and electrical synapses differentially contribute to ripple-frequency oscillations
Extracellular field potentials across brain regions exhibit distinct signatures that depend on several region-specific attributes, including spatiotemporal patterns of afferent inputs, anatomical and physiological properties ... -
Electrophysiological studies investigating drug effects on hHCN1 channels and Unravelling pore dynamics in Pannexin channels
Hyperpolarization-activated cyclic nucleotide-gated (HCN) ion channel stands out for its unique characteristics, including sensitivity to transmembrane voltage and cyclic nucleotides, as well as its non-selective passage ... -
Integrative multiscale modeling and simulations of biomolecules with experimentally testable predictions
This thesis delves into four separate research works related to Integrative multiscale modeling and simulations of biomolecules. The first work deals with the puzzling case of the Pleckstrin Homology Domain (PHD), which ... -
Interaction of hnRNPK with RNA and characterization of its phase separation behavior
Heterogenous ribonucleoproteins (hnRNPs) are a class of proteins initially discovered to protect the nascent transcripts before they develop into primary mRNAs. They are involved in almost all the stages of mRNA metabolism, ... -
On mechanisms and conformational dynamics of Drug:H+ Antiporters
Multidrug efflux is an active transport process involving energy consumption to drive antibacterial compounds out of cells. This is performed either through primary active transport, where chemical energy, such as hydrolysis ... -
Plasticity Paradigms: Navigating Protein Conformational Dynamics and Phenotypic Variability in Biological Systems
The complex dynamics and responses of biological systems to environmental cues are shaped by their inherent plasticity and adaptability. This biological plasticity, operational at multiple levels - ranging from the molecular ... -
Protein folding and Disulphide rich peptide(s) folds
Protein folding and protein folds are two sides of a coin. The study of protein folding processes is crucial for advancing our knowledge in fundamental cellular processes while the study of protein folds is important for ... -
Solution NMR studies of a potent subtilisin inhibitor from Budgett’s frog and the catalytic subunit of AHAS
This thesis involves a detailed structural study of two molecular systems, a small disulfide-rich peptide LL-TIL and a large catalytic subunit of AHAS. Subtilisin inhibitors play an important role in fighting against ... -
Structural and functional characterization of a bacterial TenpIN type III toxin-antitoxin system and its potential as an antibacterial strategy
Bacterial type III toxin-antitoxin (TA) systems were first identified as abortive infection systems wherein a phage infection causes altruistic suicide of the bacterium to prevent bacteriophage spread among its clonal ... -
Structural and functional characterization of human regulator of telomere elongation helicase 1 (RTEL1)
RTEL1 is an ATP-dependent DNA helicase that translocates on the single-stranded DNA (ssDNA) from 5′ to 3′ direction. It is an iron-sulfur (Fe-S) cluster and DEAH motif-containing helicase. RTEL1 has been shown to play ... -
Structural characterization of Staphylococcal γ-hemolysin in the presence of a lipid environment using single particle cryo-EM
γ-Hemolysin (γ-HL) is a quintessential bicomponent β-pore forming toxin (β-PFT) belonging to the arsenal of “superbug” Staphylococcus aureus. Here, we performed negative staining-TEM and single particle cryo-EM-based ... -
Understanding Bacterial Heterogeneity in Gene Expression Under Specific and Global Regulatory Control
Intrinsic heterogeneity in natural bacterial populations enable them to escape sudden changes in environment and evolve. Processes like cellular crosstalk, abiotic interactors, host interactions, intracellular signalling ...