Molecular Biophysics Unit (MBU): Recent submissions
Now showing items 41-60 of 297
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Structural and functional insights of biological macromolecules associated with infectious diseases – single particle cryo-electron microscopy based studies
In the global context, particularly in India, the two most important infectious diseases among many others are Tuberculosis (TB), an age-old disease and COVID-19, a new-age disease. This thesis focuses on some of the key ... -
First thorough characterization of the structure, interactions and specificity of an archeal lectin with implication for TB infection
Decades long studies on plant lectins carried out in this laboratory have contributed substantially to glycobiology and helped in the initiation and development of macromolecular crystallography in India. Subsequently the ... -
Probing Protein Sequence-Function Relationships using Deep Mutational Scanning
Deep Mutational Scanning (DMS) approaches help elucidate sequence-function-phenotype relationships in proteins, which ultimately improves our understanding of residue (or nucleotide)-specific contributions to protein ... -
Exploring Nature's Inventory: Investigating the Role of Amide to Thioamide Substitution on Protein Stability
The peptide backbone holds a protein together and plays a crucial role in guiding its three-dimentional structure. The tertiary structure of proteins regulates several biological processes. Therefore, peptide bond modification ... -
Identification, characterization, structure, and assembly of type III toxin-antitoxin systems from Escherichia coli
Bacteria adopt several defense strategies to enable their survival against the environmental threats they encounter from time to time. Toxin-antitoxin (TA) systems are being understood as a key bacterial defense mechanism ... -
Integrative modeling of NS3 helicase function with molecular kinetics, molecular simulations and machine learning
The viral NS3 helicase is a crucial enzyme involved in the RNA replication of positive strand ssRNA viruses of the Flaviviridae family. The NS3 is an active motor that binds RNA and couples ATP hydrolysis to the mechanical ... -
HIV-1 and SARS-CoV-2 immunogen design
Human Immunodeficiency Virus (HIV-1) is the aetiologic agent of AIDS. Presently there are ~38 million HIV-1 infected individuals worldwide and ~1 million deaths in 2019. Since its discovery, the quest for vaccine candidate ... -
Development of quantitative RNA sequencing methods to understand RNA variant diversity.
The advent of next-generation sequencing (NGS) has accelerated biological research by providing the opportunity to connect genome level sequence information to function. One key application of NGS has been analysis of gene ... -
Protein-small molecule interactions: Structural insights and applications in computational drug discovery
Deviation from normal healthy conditions, termed as disease, can often be triggered due to the malfunctioning of proteins. Modulating the functions of proteins by administering therapeutic agents (drugs) may alleviate the ... -
Influence of the substrate specificity of Mycobacterium tuberculosis ClpX on the transcriptional profile
Cellular homeostasis in bacteria is maintained by diverse molecular machines. These include several one-component systems (OCS), two- component systems (TCS), chaperone proteins, proteases, proteolytic complexes and ... -
Stimulus statistics and HCN current mediated resonance sets the scale of input-output mapping in Stellate cells of the Medial Entorhinal Cortex
The functional significance of the computations performed by Stellate cells of the Medial Entorhinal Cortex, proven time and again, makes them insightful, yet intriguing. The gradients of the intrinsic properties of these ... -
Multi-faceted modular interactions in proteins
All living systems are composed of plethora of biomolecules. There are various types of biomolecules such as proteins, DNA, RNA, carbohydrates and metabolites. All the reactions in a biological system involve interactions ... -
Cholinergic-receptor-independent modulation of intrinsic properties of subicular neurons through inhibition of hyperpolarization-activated cyclic nucleotide-gated channels
Acetylcholine release is vital in tuning the hippocampal theta oscillations. Subiculum, the output region of the hippocampus endowed with different neuronal subtypes, also generates theta oscillations during arousal and ... -
Development of high throughput methodologies to isolate stabilized mutants and to identify interfacial residues
When eukaryotic or unstable proteins are overexpressed in bacteria, these often form insoluble aggregates called inclusion bodies (IB). Refolding the proteins from inclusion bodies can be challenging, resulting in low ... -
Temporal patterns of neural activity governing spatial representation in the hippocampus
Space is a fundamental substrate for animal interactions with the external world. The hippocampus, a region deep within the temporal lobe of mammalian brains, is a multisensory structure that has been heavily implicated ... -
Structural and DNA binding properties of ARID domains present in hSWI/SNF chromatin remodeling complex subunits
The SWI/SNF complexes are multisubunit-containing protein complexes that are involved in chromatin-remodeling processes in the eukaryotic cells. In higher eukaryotes, SWI/SNF complexes contain one or more mutually exclusive ... -
Solution structures and conformational isomerism of novel conopeptides from Indian marine cone snails
This thesis describes the structure determination of peptides found in marine cone snails’ venom at atomic resolution and their biological activity. Chapter 1 gives a brief introduction to the cone snails, conopeptides, ... -
CcdB : Stability, folding and application to design novel antibacterials
The primary amino acid sequence typically dictates the ultimate conformation of the protein. Mutations in the sequence demonstrate neutral, positive or negative effects on the structure-function relationship of the protein. ... -
Understanding the role of arginine clusters in β-hairpin antimicrobial peptides
The work described in this thesis describes the role of arginine clusters and the importance of their position in B-hairpin antimicrobial peptides. Here, we have tried to explore the role of guanidinium groups in the ... -
Structural and Functional Investigation of a Multi-drug Efflux Transporter QacA
The emergence of multi-drug resistance in bacteria is a global health care challenge. One of the effective means of gaining antimicrobial resistance, among superbugs, is through expression of efflux pumps. Quaternary ...