Lista de obras - Pemra Doruker - Dominio Público Uruguay

A docking study using atomistic conformers generated via elastic network model for cyclosporin A/cyclophilin A complex.

artículo científico publicado en 2009

Allosteric interactions in the parathyroid hormone GPCR-arrestin complex formation

artículo científico publicado en 2020

Application of time series analysis on molecular dynamics simulations of proteins: a study of different conformational spaces by principal component analysis

artículo científico publicado en 2004

Blind Dockings of Benzothiazoles to Multiple Receptor Conformations of Triosephosphate Isomerase from Trypanosoma cruzi and Human

artículo científico publicado en 2011

ClustENM: ENM-Based Sampling of Essential Conformational Space at Full Atomic Resolution

artículo científico publicado en 2016

Collective dynamics of EcoRI-DNA complex by elastic network model and molecular dynamics simulations

artículo científico publicado en 2006

Collective dynamics of the ribosomal tunnel revealed by elastic network modeling

artículo científico publicado en 2009

Conformational dynamics of bacterial trigger factor in apo and ribosome-bound states.

artículo científico publicado en 2017

Conformational transition pathways explored by Monte Carlo simulation integrated with collective modes

artículo científico publicado en 2008

Cooperative fluctuations point to the dimerization interface of p53 core domain

artículo científico publicado en 2006

Correction: Ligand Docking to Intermediate and Close-To-Bound Conformers Generated by an Elastic Network Model Based Algorithm for Highly Flexible Proteins

artículo científico publicado en 2016

Coupling between catalytic loop motions and enzyme global dynamics

artículo científico publicado en 2012

Dimerization affects collective dynamics of triosephosphate isomerase

artículo científico publicado en 2008

Dynamics of large proteins through hierarchical levels of coarse-grained structures.

artículo científico publicado en 2002

Effect of cooperative hydrogen bonding in azo-hydrazone tautomerism of azo dyes

artículo científico publicado en 2007

Effect of intracellular loop 3 on intrinsic dynamics of human β2-adrenergic receptor

artículo científico publicado en 2013

Effect of ligand binding on the intraminimum dynamics of proteins

scientific article published on 20 August 2010

Essential site scanning analysis: A new approach for detecting sites that modulate the dispersion of protein global motions

scientific article published on 18 June 2020

Features of large hinge-bending conformational transitions. Prediction of closed structure from open state

artículo científico publicado en 2014

Focused functional dynamics of supramolecules by use of a mixed-resolution elastic network model

artículo científico publicado en 2009

Functional motions can be extracted from on‐lattice construction of protein structures ⬇️

artículo científico publicado el 1 de noviembre de 2003

Functional motions of influenza virus hemagglutinin: a structure-based analytical approach

artículo científico publicado en 2002

Hierarchical structure of the energy landscape of proteins revisited by time series analysis. I. Mimicking protein dynamics in different time scales

artículo científico publicado en 2005

Hierarchical structure of the energy landscape of proteins revisited by time series analysis. II. Investigation of explicit solvent effects

artículo científico publicado en 2005

How an Inhibitor Bound to Subunit Interface Alters Triosephosphate Isomerase Dynamics

artículo científico publicado en 2015

Intrinsic dynamics is evolutionarily optimized to enable allosteric behavior

scientific article published on 27 November 2019

Investigation of allosteric coupling in human β2-adrenergic receptor in the presence of intracellular loop 3.

artículo científico publicado en 2016

Ligand Docking to Intermediate and Close-To-Bound Conformers Generated by an Elastic Network Model Based Algorithm for Highly Flexible Proteins

artículo científico publicado en 2016

Ligand-binding affinity of alternative conformers of human β2 -adrenergic receptor in the presence of intracellular loop 3 (ICL3) and their potential use in virtual screening studies

scientific article published on 12 February 2019

Loop motions of triosephosphate isomerase observed with elastic networks.

artículo científico publicado en 2006

Modulation of Toroidal Proteins Dynamics in Favor of Functional Mechanisms upon Ligand Binding

scientific article published on 18 February 2020

Molecular dynamics simulations on constraint metal binding peptides

article

Protein-Ligand Complexes as Constrained Dynamical Systems

scientific article published on 04 April 2019

RESPEC Incorporates Residue Specificity and Ligand Effect into Elastic Network Model

artículo científico publicado en 2017

The ribosome structure controls and directs mRNA entry, translocation and exit dynamics

artículo científico publicado en 2008

Time series analysis of collective motions in proteins

artículo científico publicado en 2004

Towards gaining sight of multiscale events: utilizing network models and normal modes in hybrid methods

artículo científico publicado en 2020

Lista de obras de Pemra Doruker

A docking study using atomistic conformers generated via elastic network model for cyclosporin A/cyclophilin A complex.

Allosteric interactions in the parathyroid hormone GPCR-arrestin complex formation

Application of time series analysis on molecular dynamics simulations of proteins: a study of different conformational spaces by principal component analysis

Blind Dockings of Benzothiazoles to Multiple Receptor Conformations of Triosephosphate Isomerase from Trypanosoma cruzi and Human

ClustENM: ENM-Based Sampling of Essential Conformational Space at Full Atomic Resolution

Collective dynamics of EcoRI-DNA complex by elastic network model and molecular dynamics simulations

Collective dynamics of the ribosomal tunnel revealed by elastic network modeling

Conformational dynamics of bacterial trigger factor in apo and ribosome-bound states.

Conformational transition pathways explored by Monte Carlo simulation integrated with collective modes

Cooperative fluctuations point to the dimerization interface of p53 core domain

Correction: Ligand Docking to Intermediate and Close-To-Bound Conformers Generated by an Elastic Network Model Based Algorithm for Highly Flexible Proteins

Coupling between catalytic loop motions and enzyme global dynamics

Dimerization affects collective dynamics of triosephosphate isomerase

Dynamics of large proteins through hierarchical levels of coarse-grained structures.

Effect of cooperative hydrogen bonding in azo-hydrazone tautomerism of azo dyes

Effect of intracellular loop 3 on intrinsic dynamics of human β2-adrenergic receptor

Effect of ligand binding on the intraminimum dynamics of proteins

Essential site scanning analysis: A new approach for detecting sites that modulate the dispersion of protein global motions

Features of large hinge-bending conformational transitions. Prediction of closed structure from open state

Focused functional dynamics of supramolecules by use of a mixed-resolution elastic network model

Functional motions can be extracted from on‐lattice construction of protein structures ⬇️

Functional motions of influenza virus hemagglutinin: a structure-based analytical approach

Hierarchical structure of the energy landscape of proteins revisited by time series analysis. I. Mimicking protein dynamics in different time scales

Hierarchical structure of the energy landscape of proteins revisited by time series analysis. II. Investigation of explicit solvent effects

How an Inhibitor Bound to Subunit Interface Alters Triosephosphate Isomerase Dynamics

Intrinsic dynamics is evolutionarily optimized to enable allosteric behavior

Investigation of allosteric coupling in human β2-adrenergic receptor in the presence of intracellular loop 3.

Ligand Docking to Intermediate and Close-To-Bound Conformers Generated by an Elastic Network Model Based Algorithm for Highly Flexible Proteins

Ligand-binding affinity of alternative conformers of human β2 -adrenergic receptor in the presence of intracellular loop 3 (ICL3) and their potential use in virtual screening studies

Loop motions of triosephosphate isomerase observed with elastic networks.

Modulation of Toroidal Proteins Dynamics in Favor of Functional Mechanisms upon Ligand Binding

Molecular dynamics simulations on constraint metal binding peptides

Protein-Ligand Complexes as Constrained Dynamical Systems

RESPEC Incorporates Residue Specificity and Ligand Effect into Elastic Network Model

The ribosome structure controls and directs mRNA entry, translocation and exit dynamics

Time series analysis of collective motions in proteins

Towards gaining sight of multiscale events: utilizing network models and normal modes in hybrid methods