Browsing Molecular Biophysics Unit (MBU) by Title
Now showing items 158-177 of 393
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Molecular Determinants of Mutant Phenotypes in the CcdAB Toxin -Antitoxin System
(2018-05-29)A major challenge in biology is to understand and predict the effect of mutations on protein structure, stability and function. Chapter 1 provides a general introduction on protein sequence-structure relationships and use ... -
Molecular dynamics simulations of O-linked Oligosaccharides from respiratory-mucus glycoproteins
Mucins belong to the class of glycoproteins that contain oligosaccharide chains in which the N-acetylgalactosamine residue is covalently linked to the hydroxyl oxygen atom in the side chain of serine or threonine on the ... -
Molecular modelling studies on wheat germ agglutinin-saccharide interactions
Thus, the present study provides many insights into the conformational dynamics of the saccharides in vacuum and in water. It shows that at room temperature, both in vacuum and in water, the sugar ring exhibits limited ... -
Motifs in proteins: Disulfide constraints and their applications to protein engineering and peptide modelling
By carrying out a detailed data analysis of 175 PP motifs in proteins, sequence–structure relationships were identified for linking loops 1–5 residues long. Conformational families were recognized in 1-, 2-, 3-, and 4-residue ... -
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 ... -
Mutational sensitivity of CcdB mutants in their native operonic context
Determining the precise effects of thousands of point mutants on protein structure, stability, and activity is a challenging task. Chapter 1 introduces how next-generation sequencing technologies exploit phenotypic screens ... -
Network Heterogeneities, Intrinsic Plasticity and Decorrelation in the Dentate Gyrus
A central premise for research in neuroscience is to mechanistically decipher the physiological roles of the brain in effectuating learning and memory. The tripartite framework that is at the core of learning and memory ... -
Neuronal complex bursts and network information transfer in the hippocampus are robust to biophysical heterogeneities
Biological entities must adopt mechanisms to override the impact of external perturbations to achieve stability and robustness. A crucial feature of biological systems is that they exhibit several forms of heterogeneities ... -
Newer Insights On Structure, Function And Regulation Of Dps Protein From Mycobacterium smegmatis
(2010-12-29)The first chapter will provide an introduction to the physiology, pathogenesis and biology of mycobacteria. Host-pathogen interactions, different modes of resistance of the bacteria, adaptations for survival under nutrient ... -
NMR Solution Structures of Human γC-Crystallin & the Intrinsically Disordered Viral Genome Linked Protein in the Free & Bound Form
(2018-02-14)This thesis describes the tertiary structures and dynamic studies of two protein systems. The first is human γC -crystallin protein, which is present in the nucleus of the human eye lens and the other is the plant viral ... -
Non Protein amino acids in De Novo design : an evaluation
The studies described in this chapter have focused on conformational analysis of two antigenic sequences from the N- and C-termini of the chicken riboflavin carrier protein (cRCP). Both sequences investigated have a length ... -
Non-repetitive Structures In Proteins : Effects Of Side-chain And Solvent Interactions With The Backbone
(Indian Institute of Science, 2006-05-12)The work presented in this thesis deals with the analysis of protein crystal structures with an emphasis on the stereochemical aspects of the folded conformation of proteins. The various analyses described have been performed ... -
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 ... -
Orienting Macromolecule At The Air - Water Interface : DNA-Protein Interaction On Langmuir Films
(2010-07-23)The Langmuir – Blodgett (LB) technique is about forming insoluble monolayer on the surface of aqueous solution and recently, it has emerged as one of the best method to study floating monolayer at the air – water interface. ... -
(p)ppGpp and c-di-GMP : A Tale of Two Second Messengers in Mycobacterium smegmatis
Nucleotide based second messengers are known to regulate wide variety of processes in all domains of life. Two such bacterial second messengers are (p)ppGpp (guanosine tetra- or pentaphosphate) and c-di-GMP (cyclic dimeric ... -
(p)ppGpp and Stress Response : Decoding the Key Pathways by Small Molecule Analogues Biophysical Methods and Mass Spectrometry
(2018-06-08)Under hostile conditions, bacteria elicit stress response. Such stress response is regulated by a secondary messenger called (p)ppGpp. (p)ppGpp is involved in wide range of functions such as GTP homeostasis, biofilm formation ... -
Pharmacological Modulation Of Recombinant Human Two-Pore Domain K+ Channels : Whole-Cell patch-Clamp Analysis
(2011-10-21)Background potassium currents play an important role in the regulation of the resting membrane potential and excitability of mammalian neurons. Recently cloned two- pore domain potassium channels (K2p) are believed to ... -
Physico-chemical and theoretical studies on polypeptide conformations
One of the important secondary structures in globular and fibrous proteins is the ?-structure, originally proposed by Linus Pauling in the early fifties. The understanding of the ?-structure is, however, hampered by ...