Lista de obras - Federico Fogolari - Dominio Público Uruguay

A decoy set for the thermostable subdomain from chicken villin headpiece, comparison of different free energy estimators

artículo científico publicado en 2005

A differential equation for the Generalized Born radii

artículo científico publicado en 2013

A new germline VHL gene mutation in three patients with apparently sporadic pheochromocytoma.

artículo científico publicado en 2013

A specific nanobody prevents amyloidogenesis of D76N β2-microglobulin in vitro and modifies its tissue distribution in vivo.

artículo científico publicado en 2017

Absolute quantification of choline-related biomarkers in breast cancer biopsies by liquid chromatography electrospray ionization mass spectrometry.

artículo científico publicado en 2013

Accuracy assessment of the linear Poisson-Boltzmann equation and reparametrization of the OBC generalized Born model for nucleic acids and nucleic acid-protein complexes

artículo científico publicado en 2015

Accurate Estimation of the Entropy of Rotation-Translation Probability Distributions

artículo científico publicado en 2015

Agent-based protein structure prediction

Amino acid empirical contact energy definitions for fold recognition in the space of contact maps

artículo científico publicado en 2003

Analysis of the conformation and stability of rat TTF-1 homeodomain by circular dichroism

artículo científico publicado en 1994

Analysis of the solution structure of the homeodomain of rat thyroid transcription factor 1 by 1H-NMR spectroscopy and restrained molecular mechanics

artículo científico publicado en 1996

Application of MM/PBSA colony free energy to loop decoy discrimination: toward correlation between energy and root mean square deviation.

artículo científico publicado en 2005

Automation of peak-tracking analysis of stepwise perturbed NMR spectra

artículo científico publicado en 2017

Bluues server: electrostatic properties of wild-type and mutated protein structures.

artículo científico publicado en 2012

Bluues: a program for the analysis of the electrostatic properties of proteins based on generalized Born radii

artículo científico publicado en 2012

CLP-based protein fragment assembly

Chelating effect in short polymers for the design of bidentate binders of increased affinity and selectivity

artículo científico publicado en 2015

Citrate stabilized gold nanoparticles interfere with amyloid fibril formation: D76N and ΔN6 β2-microglobulin variants

artículo científico publicado en 2018

Citrate-stabilized gold nanoparticles hinder fibrillogenesis of a pathological variant of β2-microglobulin.

artículo científico publicado en 2017

Collagen plays an active role in the aggregation of beta2-microglobulin under physiopathological conditions of dialysis-related amyloidosis

artículo científico publicado en 2006

Comparative molecular dynamics simulations of HIV-1 integrase and the T66I/M154I mutant: binding modes and drug resistance to a diketo acid inhibitor.

artículo científico publicado en 2005

Comparison of the structural and functional properties of RNase A and BS-RNase: a stepwise mutagenesis approach.

artículo científico publicado en 2009

Conformational stability of neuroglobin helix F--possible effects on the folding pathway within the globin family

artículo científico publicado en 2009

Conformational study of a short Pertussis toxin T cell epitope incorporated in a multiple antigen peptide template by CD and two-dimensional NMR. Analysis of the structural effects on the activity of synthetic immunogens

artículo científico publicado en 1993

Constraint Logic Programming approach to protein structure prediction

artículo científico publicado en 2004

Determining the energy landscape of proteins by a fast isotope exchange NMR approach.

artículo científico publicado en 2012

Dimerization, stability and electrostatic properties of porcine beta-lactoglobulin

artículo científico publicado en 2001

Dimers of mitochondrial ATP synthase form the permeability transition pore

artículo científico publicado en 2013

Distance-Based Configurational Entropy of Proteins from Molecular Dynamics Simulations

artículo científico publicado en 2015

Dynamics and Thermodynamics of Transthyretin Association from Molecular Dynamics Simulations

artículo científico publicado en 2018

EF loop conformational change triggers ligand binding in beta-lactoglobulins

artículo científico publicado en 2003

Effect of tetracyclines on the dynamics of formation and destructuration of beta2-microglobulin amyloid fibrils

artículo científico publicado en 2010

Electric dipole reorientation in the interaction of botulinum neurotoxins with neuronal membranes

artículo científico publicado en 2009

Electrostatic and non-electrostatic contributions to the binding free energies of anthracycline antibiotics to DNA ⬇️

artículo científico publicado el 28 de noviembre de 1997

Electrostatic effects in homeodomain-DNA interactions

artículo científico publicado en 1997

Electrostatic properties of bovine beta-lactoglobulin

artículo científico publicado en 2000

Entropy of Two-Molecule Correlated Translational-Rotational Motions Using the <i>k</i>th Nearest Neighbor Method

artículo científico publicado en 2021

Equilibrium unfolding thermodynamics of beta2-microglobulin analyzed through native-state H/D exchange

artículo científico publicado en 2009

Estimation of $$^{3}J_{HN\hbox{-}H\alpha}$$ and $$^{3}J_{H\alpha\hbox{-}H\beta}$$ coupling constants from heteronuclear TOCSY spectra

artículo científico publicado en 2007

Evaluation of J Coupling Constants from Peak Amplitudes of Total Correlation Spectra

Exploring exchange processes in proteins by paramagnetic perturbation of NMR spectra

scientific article published on 01 March 2020

Fast structure similarity searches among protein models: efficient clustering of protein fragments

artículo científico publicado en 2012

Folding and fibrillogenesis: clues from beta2-microglobulin.

artículo científico publicado en 2010

Free Energy, Enthalpy and Entropy from Implicit Solvent End-Point Simulations

artículo científico publicado en 2018

Free energies calculated according to Manning's polyelectrolyte model compared with Poisson Boltzmann predictions.

artículo científico publicado en 1993

From ATP to PTP and Back: A Dual Function for the Mitochondrial ATP Synthase

artículo científico publicado en 2015

Functional analysis of a novel RUNX2 missense mutation found in a family with cleidocranial dysplasia

artículo científico publicado en 2005

Generalized Born forces: surface integral formulation

artículo científico publicado en 2013

Helix mobility and recognition function of the rat thyroid transcription factor 1 homeodomain - hints from 15N-NMR relaxation studies

article

Hydrogen-deuterium exchange studies of the rat thyroid transcription factor 1 homeodomain

artículo científico publicado el 1 de junio de 1997

Identification of DNA-binding protein target sequences by physical effective energy functions: free energy analysis of lambda repressor-DNA complexes

artículo científico publicado en 2007

Improved Processing of Selective NMR Spectra of Biopolymers by Separation of Noise and Signal Subspaces through Singular-Value Decomposition

artículo científico publicado en 1996

Insights into a Protein-Nanoparticle System by Paramagnetic Perturbation NMR Spectroscopy

artículo científico publicado en 2020

Interference of citrate-stabilized gold nanoparticles with β2-microglobulin oligomeric association

artículo científico publicado en 2018

Investigations of Sso7d catalytic residues by NMR titration shifts and electrostatic calculations

artículo científico publicado en 2003

Limiting-laws of polyelectrolyte solutions. Ionic distribution in mixed-valency counterions systems. I: The model

scientific article published on 01 October 1991

MM/PBSA analysis of molecular dynamics simulations of bovine β-lactoglobulin: Free energy gradients in conformational transitions?

artículo científico publicado en 2005

Mitochondrial F(0) F(1) -ATP synthase is a molecular target of 3-iodothyronamine, an endogenous metabolite of thyroid hormone

artículo científico publicado en 2012

Modeling of polypeptide chains as C alpha chains, C alpha chains with C beta, and C alpha chains with ellipsoidal lateral chains.

artículo científico publicado en 1996

Molecular analysis of a human PAX6 homeobox mutant

artículo científico publicado en 2006

Molecular dynamics simulation of β2-microglobulin in denaturing and stabilizing conditions

artículo científico publicado en 2010

Molecular dynamics simulation suggests possible interaction patterns at early steps of beta2-microglobulin aggregation.

artículo científico publicado en 2006

Molecular dynamics simulations of β2-microglobulin interaction with hydrophobic surfaces.

artículo científico publicado en 2017

Molecular mechanics and dynamics of biomolecules using a solvent continuum model

artículo científico publicado en 2001

Molecular models for intrastrand DNA G-quadruplexes

artículo científico publicado en 2009

Monitoring folding/unfolding transitions of proteins by capillary zone electrophoresis: Measurement ofG and its variation along the pH scale ⬇️

artículo científico publicado el 1 de octubre de 2001

Monitoring the interaction between β2-microglobulin and the molecular chaperone αB-crystallin by NMR and mass spectrometry: αB-crystallin dissociates β2-microglobulin oligomers.

artículo científico publicado en 2013

NMR and circular dichroism studies of the lantibiotic nisin in non-aqueous environments.

artículo científico publicado en 1993

NMR dynamic studies suggest that allosteric activation regulates ligand binding in chicken liver bile acid-binding protein

artículo científico publicado en 2006

NMR solution structure of viscotoxin C1 from Viscum album species Coloratum ohwi: toward a structure-function analysis of viscotoxins

artículo científico publicado en 2003

NMR structural characterization of the reaction product between d(GpG) and the octahedral antitumor complex trans-RuCl2(DMSO)4

scientific article published on 01 August 1992

NMR structural determination of viscotoxin A3 from Viscum album L

artículo científico publicado en 2000

NMR-based homology model for the solution structure of the C-terminal globular domain of EMILIN1

artículo científico publicado en 2009

Native-unlike long-lived intermediates along the folding pathway of the amyloidogenic protein beta2-microglobulin revealed by real-time two-dimensional NMR.

artículo científico publicado en 2009

Nucleotide diversity and linkage disequilibrium in Populus nigra cinnamyl alcohol dehydrogenase (CAD4) gene

article

OSCP subunit of mitochondrial ATP synthase: Role in regulation of enzyme function and of its transition to a pore

scholarly article by Valentina Giorgio et al published 6 October 2018 in British Journal of Pharmacology

On the variational approach to Poisson–Boltzmann free energies

PDB2ENTROPY and PDB2TRENT: Conformational and Translational–Rotational Entropy from Molecular Ensembles

artículo científico publicado en 2018

Peptide models of folding initiation sites of bovine beta-lactoglobulin: identification of nativelike hydrophobic interactions involving G and H strands

artículo científico publicado en 2002

Polyelectrolytes in mixed salts: Scatchard plots obtained by means of Poisson-Boltzmann calculations

Presence of dityrosine bridges in thyroglobulin and their relationship with iodination.

artículo científico publicado en 1994

Probing the influence of citrate-capped gold nanoparticles on an amyloidogenic protein

artículo científico publicado en 2015

Protein Aggregation Measurement through Electrical Impedance Spectroscopy

Protocol for MM/PBSA molecular dynamics simulations of proteins

artículo científico publicado en 2003

Proton Strong Coupling in Heteronuclear Systems. Theoretical and Experimental Evaluation in Quantitative Analysis of SQC NOESY Spectra of Biopolymers

Quantitative correlation of solvent polarity with the alpha-/3(10)-helix equilibrium: a heptapeptide behaves as a solvent-driven molecular spring

artículo científico publicado en 2003

Rapid oligomer formation of human muscle acylphosphatase induced by heparan sulfate

artículo científico publicado en 2012

Reduction of conformational mobility and aggregation in W60G β2-microglobulin: assessment by 15N NMR relaxation.

artículo científico publicado en 2013

Role of Dynamics in the Autoinhibition and Activation of the Hyperpolarization-activated Cyclic Nucleotide-modulated (HCN) Ion Channels

artículo científico publicado en 2015

Role of dynamics in the autoinhibition and activation of the exchange protein directly activated by cyclic AMP (EPAC)

artículo científico publicado en 2011

SIRT1 gene expression upon genotoxic damage is regulated by APE1 through nCaRE-promoter elements.

artículo científico publicado en 2013

Scoring predictive models using a reduced representation of proteins: model and energy definition.

artículo científico publicado en 2007

Secondary structure effects on the interaction of different polynucleotides with Ca2+

scientific article published in 1990

Short-Chain Alkanethiol Coating for Small-Size Gold Nanoparticles Supporting Protein Stability

Similarity Measures Based on the Overlap of Ranked Genes Are Effective for Comparison and Classification of Microarray Data.

artículo científico publicado en 2016

Simulation of electrostatic effects in Fab-antigen complex formation

artículo científico publicado en 2000

Single-shot NMR measurement of protein unfolding landscapes.

artículo científico publicado en 2012

Solution structure of beta(2)-microglobulin and insights into fibrillogenesis.

artículo científico publicado en 2005

Structural and dynamics characteristics of acylphosphatase from Sulfolobus solfataricus in the monomeric state and in the initial native-like aggregates

artículo científico publicado en 2010

Structural study of rat thyroid transcription factor 1 homeodomain (TTF-1 HD) by nuclear magnetic resonance

scientific article published on 01 December 1993

Structure, folding dynamics, and amyloidogenesis of D76N β2-microglobulin: roles of shear flow, hydrophobic surfaces, and α-crystallin.

artículo científico publicado en 2013

Studying interactions by molecular dynamics simulations at high concentration

artículo científico publicado en 2012

The BR domain of PsrP interacts with extracellular DNA to promote bacterial aggregation; structural insights into pneumococcal biofilm formation

artículo científico publicado en 2016

The Poisson-Boltzmann equation for biomolecular electrostatics: a tool for structural biology

artículo científico publicado en 2002

The Solution Structure of DNA-free Pax-8 Paired Box Domain Accounts for Redox Regulation of Transcriptional Activity in the Pax Protein Family

artículo científico publicado en 2008

The TTTT B lymphocyte stimulator promoter haplotype is associated with good response to rituximab therapy in seropositive rheumatoid arthritis resistant to tumor necrosis factor blockers.

artículo científico publicado en 2013

The catalytic site of glutathione peroxidases.

artículo científico publicado en 2008

The controlling roles of Trp60 and Trp95 in beta2-microglobulin function, folding and amyloid aggregation properties

artículo científico publicado en 2008

The interaction of β2-microglobulin with gold nanoparticles: impact of coating, charge and size

artículo científico publicado en 2018

The oligomycin-sensitivity conferring protein of mitochondrial ATP synthase: emerging new roles in mitochondrial pathophysiology

artículo científico publicado en 2014

The projection analysis of NMR chemical shifts reveals extended EPAC autoinhibition determinants.

artículo científico publicado en 2012

The unique histidine in OSCP subunit of F-ATP synthase mediates inhibition of the permeability transition pore by acidic pH.

artículo científico publicado en 2017

The α4β1/EMILIN1 interaction discloses a novel and unique integrin-ligand type of engagement

artículo científico publicado en 2017

Transcriptomic analysis unveils correlations between regulative apoptotic caspases and genes of cholesterol homeostasis in human brain

artículo científico publicado en 2014

Unfolding and refolding of bovine beta-lactoglobulin monitored by hydrogen exchange measurements.

artículo científico publicado en 1999

Use of Autocorrelation-Like Function to Improve the Performance of Linear-Prediction Parameter Estimators

Using Secondary Structure Information for Protein Folding in CLP( FD )1 1The work is partially supported by MIUR project: Automatic Aggregate –and number– Reasoning for Computing

pKaShift Effects on Backbone Amide Base-Catalyzed Hydrogen Exchange Rates in Peptides

artículo científico publicado en 1998

Lista de obras de Federico Fogolari

A decoy set for the thermostable subdomain from chicken villin headpiece, comparison of different free energy estimators

A differential equation for the Generalized Born radii

A new germline VHL gene mutation in three patients with apparently sporadic pheochromocytoma.

A specific nanobody prevents amyloidogenesis of D76N β2-microglobulin in vitro and modifies its tissue distribution in vivo.

Absolute quantification of choline-related biomarkers in breast cancer biopsies by liquid chromatography electrospray ionization mass spectrometry.

Accuracy assessment of the linear Poisson-Boltzmann equation and reparametrization of the OBC generalized Born model for nucleic acids and nucleic acid-protein complexes

Accurate Estimation of the Entropy of Rotation-Translation Probability Distributions

Agent-based protein structure prediction

Amino acid empirical contact energy definitions for fold recognition in the space of contact maps

Analysis of the conformation and stability of rat TTF-1 homeodomain by circular dichroism

Analysis of the solution structure of the homeodomain of rat thyroid transcription factor 1 by 1H-NMR spectroscopy and restrained molecular mechanics

Application of MM/PBSA colony free energy to loop decoy discrimination: toward correlation between energy and root mean square deviation.

Automation of peak-tracking analysis of stepwise perturbed NMR spectra

Bluues server: electrostatic properties of wild-type and mutated protein structures.

Bluues: a program for the analysis of the electrostatic properties of proteins based on generalized Born radii

CLP-based protein fragment assembly

Chelating effect in short polymers for the design of bidentate binders of increased affinity and selectivity

Citrate stabilized gold nanoparticles interfere with amyloid fibril formation: D76N and ΔN6 β2-microglobulin variants

Citrate-stabilized gold nanoparticles hinder fibrillogenesis of a pathological variant of β2-microglobulin.

Collagen plays an active role in the aggregation of beta2-microglobulin under physiopathological conditions of dialysis-related amyloidosis

Comparative molecular dynamics simulations of HIV-1 integrase and the T66I/M154I mutant: binding modes and drug resistance to a diketo acid inhibitor.

Comparison of the structural and functional properties of RNase A and BS-RNase: a stepwise mutagenesis approach.

Conformational stability of neuroglobin helix F--possible effects on the folding pathway within the globin family

Conformational study of a short Pertussis toxin T cell epitope incorporated in a multiple antigen peptide template by CD and two-dimensional NMR. Analysis of the structural effects on the activity of synthetic immunogens

Constraint Logic Programming approach to protein structure prediction

Determining the energy landscape of proteins by a fast isotope exchange NMR approach.

Dimerization, stability and electrostatic properties of porcine beta-lactoglobulin

Dimers of mitochondrial ATP synthase form the permeability transition pore

Distance-Based Configurational Entropy of Proteins from Molecular Dynamics Simulations

Dynamics and Thermodynamics of Transthyretin Association from Molecular Dynamics Simulations

EF loop conformational change triggers ligand binding in beta-lactoglobulins

Effect of tetracyclines on the dynamics of formation and destructuration of beta2-microglobulin amyloid fibrils

Electric dipole reorientation in the interaction of botulinum neurotoxins with neuronal membranes

Electrostatic and non-electrostatic contributions to the binding free energies of anthracycline antibiotics to DNA ⬇️

Electrostatic effects in homeodomain-DNA interactions

Electrostatic properties of bovine beta-lactoglobulin

Entropy of Two-Molecule Correlated Translational-Rotational Motions Using the <i>k</i>th Nearest Neighbor Method

Equilibrium unfolding thermodynamics of beta2-microglobulin analyzed through native-state H/D exchange

Estimation of $$^{3}J_{HN\hbox{-}H\alpha}$$ and $$^{3}J_{H\alpha\hbox{-}H\beta}$$ coupling constants from heteronuclear TOCSY spectra

Evaluation of J Coupling Constants from Peak Amplitudes of Total Correlation Spectra

Exploring exchange processes in proteins by paramagnetic perturbation of NMR spectra

Fast structure similarity searches among protein models: efficient clustering of protein fragments

Folding and fibrillogenesis: clues from beta2-microglobulin.

Free Energy, Enthalpy and Entropy from Implicit Solvent End-Point Simulations

Free energies calculated according to Manning's polyelectrolyte model compared with Poisson Boltzmann predictions.

From ATP to PTP and Back: A Dual Function for the Mitochondrial ATP Synthase

Functional analysis of a novel RUNX2 missense mutation found in a family with cleidocranial dysplasia

Generalized Born forces: surface integral formulation

Helix mobility and recognition function of the rat thyroid transcription factor 1 homeodomain - hints from 15N-NMR relaxation studies

Hydrogen-deuterium exchange studies of the rat thyroid transcription factor 1 homeodomain

Identification of DNA-binding protein target sequences by physical effective energy functions: free energy analysis of lambda repressor-DNA complexes

Improved Processing of Selective NMR Spectra of Biopolymers by Separation of Noise and Signal Subspaces through Singular-Value Decomposition

Insights into a Protein-Nanoparticle System by Paramagnetic Perturbation NMR Spectroscopy

Interference of citrate-stabilized gold nanoparticles with β2-microglobulin oligomeric association

Investigations of Sso7d catalytic residues by NMR titration shifts and electrostatic calculations

Limiting-laws of polyelectrolyte solutions. Ionic distribution in mixed-valency counterions systems. I: The model

MM/PBSA analysis of molecular dynamics simulations of bovine β-lactoglobulin: Free energy gradients in conformational transitions?

Mitochondrial F(0) F(1) -ATP synthase is a molecular target of 3-iodothyronamine, an endogenous metabolite of thyroid hormone

Modeling of polypeptide chains as C alpha chains, C alpha chains with C beta, and C alpha chains with ellipsoidal lateral chains.

Molecular analysis of a human PAX6 homeobox mutant

Molecular dynamics simulation of β2-microglobulin in denaturing and stabilizing conditions

Molecular dynamics simulation suggests possible interaction patterns at early steps of beta2-microglobulin aggregation.

Molecular dynamics simulations of β2-microglobulin interaction with hydrophobic surfaces.

Molecular mechanics and dynamics of biomolecules using a solvent continuum model

Molecular models for intrastrand DNA G-quadruplexes

Monitoring folding/unfolding transitions of proteins by capillary zone electrophoresis: Measurement ofG and its variation along the pH scale ⬇️

Monitoring the interaction between β2-microglobulin and the molecular chaperone αB-crystallin by NMR and mass spectrometry: αB-crystallin dissociates β2-microglobulin oligomers.

NMR and circular dichroism studies of the lantibiotic nisin in non-aqueous environments.

NMR dynamic studies suggest that allosteric activation regulates ligand binding in chicken liver bile acid-binding protein

NMR solution structure of viscotoxin C1 from Viscum album species Coloratum ohwi: toward a structure-function analysis of viscotoxins

NMR structural characterization of the reaction product between d(GpG) and the octahedral antitumor complex trans-RuCl2(DMSO)4

NMR structural determination of viscotoxin A3 from Viscum album L

NMR-based homology model for the solution structure of the C-terminal globular domain of EMILIN1

Native-unlike long-lived intermediates along the folding pathway of the amyloidogenic protein beta2-microglobulin revealed by real-time two-dimensional NMR.

Nucleotide diversity and linkage disequilibrium in Populus nigra cinnamyl alcohol dehydrogenase (CAD4) gene

OSCP subunit of mitochondrial ATP synthase: Role in regulation of enzyme function and of its transition to a pore

On the variational approach to Poisson–Boltzmann free energies

PDB2ENTROPY and PDB2TRENT: Conformational and Translational–Rotational Entropy from Molecular Ensembles

Peptide models of folding initiation sites of bovine beta-lactoglobulin: identification of nativelike hydrophobic interactions involving G and H strands