Browsing by Advisor "Varadarajan, Raghavan"
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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. ... -
Computational Analyses of Protein Structure and Immunogen Design
(2018-08-20)The sequence of a polypeptide chain determines its structure which in turns determines its function. A protein is stabilized by multiple forces; hydrophobic interaction, electrostatic interactions and hydrogen bond formation ... -
Computational And Experimental Studies On Protein Structure, Stability And Dynamics
(2014-08-18)The work in this thesis focuses on the study of three main aspects of proteins, viz, Protein structure, stability, and dynamics. Chapter 1 is a general introduction to the topics studied in this thesis. Chapter 2 deals ... -
Conformational Analysis And Design Of Disulfides In Antiparallel β-Sheets And Helices
(2013-08-30)Disulfides are the primary covalent interactions within a protein molecule that connect residues which are sequentially distant. Naturally occurring disulfides enhance the stability of the protein by destabilization of ... -
Design and Application of Temperature Sensitive Mutants in Essential Factors of RNA Splicing and RNA Interference Pathway in Schizosaccharomyces Pombe
(2018-05-10)Gene deletions are a powerful method to uncover the cellular functions of a given gene in living systems. A limitation to this methodology is that it is not applicable to essential genes. Even for non-essential genes, gene ... -
Design and Characterization of HIV-1 ENV Derived Immunogens
(2018-06-21)The Human Immunodeficiency Virus (HIV) is a member of the retroviridae family from lentivirus genus which primarily infects CD4+ T cells and also to lesser degree monocytes, macrophages, and dendritic cells causing progressive ... -
Design And Isolation Of Temperature Sensitive Mutants Of Gal4 In Yeast And Drosophila
(2009-04-16)Genomic and proteomic investigations have yielded, and continue to produce, a large amount of information about genes and their protein products. In contrast, the evidence bearing on physiological roles of specific proteins ... -
Design and Stabilization of Stem Derived Immunogens from HA of Influenza A Viruses
(2018-07-19)Influenza virus belongs to the Orthomyxovirus family of viruses that causes respiratory infection in humans, leading to morbidity and mortality. The mature influenza A virion has an envelope that contains two major surface ... -
Design of Influenza Immunogens by Hemagglutinin (HA) Protein Minimization
(2018-01-31)Influenza virus is a pleiomorphic human pathogen which causes self-limiting respiratory illness lasting one-two weeks in most individuals. However, in immunologically compromised individuals, influenza infection may lead ... -
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 ... -
Determinants Of Globular Protein Stability And Temperature Sensitivity Inferred From Saturation Mutagenesis Of CcdB
(2011-02-25)The unique native structure is a basic requirement for normal functioning of most proteins. Many diseases stem from mutations in proteins that destabilize the protein structure thereby resulting in impairment or loss of ... -
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 ... -
Effects of Cyclic Permutation, Glycan Removal and Aspartate Mutagenesis on Conformation of HIV-1 Envelope
It has been decades since Human Immunodeficiency Virus-1 (HIV-1) was discovered. The virus has created havoc worldwide. According to the UNAIDS 2014 Gap report, 35million people worldwide are infected with HIV-1 and yet ... -
gp120 Immunogen Design And Characterization
(2011-10-21)HIV-1 is the causative agent for AIDS and has been a major focus of research for the past two decades. Though there is a combination therapy in place known as the “Highly Active Anti-Retroviral Therapy” (HAART), its ... -
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 ... -
HIV-1 Immunogen Design : Envelope Protein Minimization, Stabilization and Glycan Removal
Effective vaccines exist for a number of viral diseases. However, despite much effort, there is no successful vaccine against the Human Immunodeficiency Virus (HIV-1). The envelope glycoprotein (Env) of HIV-1 gp120, the ... -
Interaction Of Chaperone SecB With Protein Substrates: A Biophysical Study
(Indian Institute of Science, 2006-10-17)In the cell, as in in vitro, the final conformation of a protein is determined by it's amino acid sequence (1). Some isolated proteins can be denatured and refolded in vitro in absence of extrinsic factors. However, in ... -
Mechanistic And Regulatory Aspects Of The Mycobacterium Tuberculosis Dephosphocoenzyme A Kinase
(2013-09-11)The current, grim world-TB scenario, with TB being the single largest infectious disease killer, warrants a more effective approach to tackle the deadly pathogen, Mycobacterium tuberculosis. The deadly synergy of this ... -
Mechanistic insights into protein stabilization and protein-protein interactions
Most amino acid substitutions in a protein either lead to partial loss of function or are near neutral. Several studies have shown the existence of second-site mutations that can rescue the defects caused by diverse loss ...