List of works - Saraswathi Vishveshwara

13 Influence of iron on iron dependent repressor (IdeR) activation and DNA binding

scientific article published in May 2015

A graph spectral analysis of the structural similarity network of protein chains

scientific article published in October 2005

A network representation of protein structures: implications for protein stability.

scientific article

A search for energy minimized sequences of proteins

scientific article

A study of communication pathways in methionyl- tRNA synthetase by molecular dynamics simulations and structure network analysis

scholarly article

Ab initio studies on the tri- and diphosphate fragments of adenosine triphosphate

scientific article published on 26 August 2005

Allosteric communication in cysteinyl tRNA synthetase: a network of direct and indirect readout

scientific article

Allostery and conformational free energy changes in human tryptophanyl-tRNA synthetase from essential dynamics and structure networks.

scientific article

Amino acid interaction preferences in proteins

scientific article

An automated approach to network features of protein structure ensembles ⬇️

scientific article published on October 1, 2013

Characterization of the backbone geometry of protein native state structures.

scientific article

Comparative analysis of thermophilic and mesophilic proteins using Protein Energy Networks

scientific article

Correlation of the side-chain hubs with the functional residues in DNA binding protein structures.

scientific article

Determinants of quaternary association in legume lectins

scientific article published in July 2004

Distinctive contributions of the ribosomal P-site elements m2G966, m5C967 and the C-terminal tail of the S9 protein in the fidelity of initiation of translation in Escherichia coli

scientific article published on 25 March 2013

Dynamics of lysozyme structure network: probing the process of unfolding

scientific article

Elucidation of the conformational free energy landscape in H.pylori LuxS and its implications to catalysis

scientific article

Exploration of the conformational landscape in pregnane X receptor reveals a new binding pocket

scientific article

Functional correlation of bacterial LuxS with their quaternary associations: interface analysis of the structure networks.

scientific article

Identification of domains and domain interface residues in multidomain proteins from graph spectral method.

scientific article

Inferring biochemical routes from biochemical networks

Insight into the early stages of thermal unfolding of peanut agglutinin by molecular dynamics simulations.

scientific article

Insights into protein-DNA interactions through structure network analysis

scientific article

Insights into the Fold Organization of TIM Barrel from Interaction Energy Based Structure Networks ⬇️

scientific article published on May 17, 2012

Inter-helical interactions in membrane proteins: analysis based on the local backbone geometry and the side chain interactions

scientific article published in June 2009

Interaction Signatures Stabilizing the NAD(P)-Binding Rossmann Fold: A Structure Network Approach ⬇️

scientific article published on December 17, 2012

Interaction energy based protein structure networks

scientific article

Interaction of DNA with clusters of amino acids in proteins

scientific article

Intra and inter-molecular communications through protein structure network.

scientific article

Ligand dependent intra and inter subunit communication in human tryptophanyl tRNA synthetase as deduced from the dynamics of structure networks.

scientific article

Mechanism of Iron-Dependent Repressor (IdeR) Activation and DNA Binding: A Molecular Dynamics and Protein Structure Network Study

scientific article

Metabolome based reaction graphs of M. tuberculosis and M. leprae: a comparative network analysis

scientific article

Molecular mechanism of in vitro oligomerization of Dps from Mycobacterium smegmatis: mutations of the residues identified by "interface cluster" analysis.

scientific article

Network approach for capturing ligand-induced subtle global changes in protein structures ⬇️

scientific article published on April 14, 2011

Network properties of protein-decoy structures ⬇️

scientific article published on January 1, 2012

Oligomeric protein structure networks: insights into protein-protein interactions

scientific article

Protein Structure and Function: Looking through the Network of Side-Chain Interactions.

scientific article

Protein structure and folding – simplicity within complexity ⬇️

scientific article published on January 14, 2013

Quantum clustering and network analysis of MD simulation trajectories to probe the conformational ensembles of protein–ligand interactions ⬇️

scientific article published on May 27, 2011

Ranking the quality of protein structure models using sidechain based network properties

scientific article

Rule-based modelling of iron homeostasis in tuberculosis

scholarly article by Soma Ghosh et al published 2011 in Molecular BioSystems

Stability of dimeric interface in banana lectin: Insight from molecular dynamics simulations

scientific article

Structure networks of E. coli glutaminyl-tRNA synthetase: effects of ligand binding.

scientific article

Understanding protein structure from a percolation perspective.

scientific article

Validation of Protein Structure Models using Network Similarity Score

scientific article

Variations in clique and community patterns in protein structures during allosteric communication: investigation of dynamically equilibrated structures of methionyl tRNA synthetase complexes.

scientific article

List of works by Saraswathi Vishveshwara

13 Influence of iron on iron dependent repressor (IdeR) activation and DNA binding

A graph spectral analysis of the structural similarity network of protein chains

A network representation of protein structures: implications for protein stability.

A search for energy minimized sequences of proteins

A study of communication pathways in methionyl- tRNA synthetase by molecular dynamics simulations and structure network analysis

Ab initio studies on the tri- and diphosphate fragments of adenosine triphosphate

Allosteric communication in cysteinyl tRNA synthetase: a network of direct and indirect readout

Allostery and conformational free energy changes in human tryptophanyl-tRNA synthetase from essential dynamics and structure networks.

Amino acid interaction preferences in proteins

An automated approach to network features of protein structure ensembles ⬇️

Characterization of the backbone geometry of protein native state structures.

Comparative analysis of thermophilic and mesophilic proteins using Protein Energy Networks

Correlation of the side-chain hubs with the functional residues in DNA binding protein structures.

Determinants of quaternary association in legume lectins

Distinctive contributions of the ribosomal P-site elements m2G966, m5C967 and the C-terminal tail of the S9 protein in the fidelity of initiation of translation in Escherichia coli

Dynamics of lysozyme structure network: probing the process of unfolding

Elucidation of the conformational free energy landscape in H.pylori LuxS and its implications to catalysis

Exploration of the conformational landscape in pregnane X receptor reveals a new binding pocket

Functional correlation of bacterial LuxS with their quaternary associations: interface analysis of the structure networks.

Identification of domains and domain interface residues in multidomain proteins from graph spectral method.

Inferring biochemical routes from biochemical networks

Insight into the early stages of thermal unfolding of peanut agglutinin by molecular dynamics simulations.

Insights into protein-DNA interactions through structure network analysis

Insights into the Fold Organization of TIM Barrel from Interaction Energy Based Structure Networks ⬇️

Inter-helical interactions in membrane proteins: analysis based on the local backbone geometry and the side chain interactions

Interaction Signatures Stabilizing the NAD(P)-Binding Rossmann Fold: A Structure Network Approach ⬇️

Interaction energy based protein structure networks

Interaction of DNA with clusters of amino acids in proteins

Intra and inter-molecular communications through protein structure network.

Ligand dependent intra and inter subunit communication in human tryptophanyl tRNA synthetase as deduced from the dynamics of structure networks.

Mechanism of Iron-Dependent Repressor (IdeR) Activation and DNA Binding: A Molecular Dynamics and Protein Structure Network Study

Metabolome based reaction graphs of M. tuberculosis and M. leprae: a comparative network analysis

Molecular mechanism of in vitro oligomerization of Dps from Mycobacterium smegmatis: mutations of the residues identified by "interface cluster" analysis.

Network approach for capturing ligand-induced subtle global changes in protein structures ⬇️

Network properties of protein-decoy structures ⬇️

Oligomeric protein structure networks: insights into protein-protein interactions

Protein Structure and Function: Looking through the Network of Side-Chain Interactions.

Protein structure and folding – simplicity within complexity ⬇️

Quantum clustering and network analysis of MD simulation trajectories to probe the conformational ensembles of protein–ligand interactions ⬇️

Ranking the quality of protein structure models using sidechain based network properties

Rule-based modelling of iron homeostasis in tuberculosis

Stability of dimeric interface in banana lectin: Insight from molecular dynamics simulations

Structure networks of E. coli glutaminyl-tRNA synthetase: effects of ligand binding.

Understanding protein structure from a percolation perspective.

Validation of Protein Structure Models using Network Similarity Score

Variations in clique and community patterns in protein structures during allosteric communication: investigation of dynamically equilibrated structures of methionyl tRNA synthetase complexes.