Molecular Biophysics Unit (MBU): Recent submissions
Now showing items 41-60 of 293
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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 ... -
Structural and functional studies on a small Heat Shock Protein from Entamoeba histolytica
Small Heat Shock Proteins (sHSPs) are molecular chaperones that bind to unfolding proteins during cellular stress to prevent them from aggregation. Once the normal conditions are restored, sHSPs release the bound substrate ... -
Design of soluble and particulate immunogens derived from the stem of Influenza hemagglutinin
Influenza is a highly contagious virus, belonging to the family Orthomyxoviridae that causes acute febrile respiratory illness which can be fatal in some cases. The highest risk groups for influenza viral infection ... -
Use of sub-family specific residues of protein modules in recognizing sites of functional and structural specialization
Functional and regulatory features of a protein in a living system are determined by several factors such as chemical nature and three-dimensional arrangement of residues in the functional site, spatial and temporal ... -
Integration of sequences, structures, dynamics to study functional divergence in homologous proteins and their assemblies
Functions of proteins are governed by their sequences, structures, dynamics and assembly. Modulation of these factors during evolution renders functional divergence in related proteins that have originated from the common ...