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List of works by Pablo Chacón

A fast band–Krylov eigensolver for macromolecular functional motion simulation on multicore architectures and graphics processors

scholarly article by José I. Aliaga et al published March 2016 in Journal of Computational Physics

A prediction of DPP IV/CD26 domain structure from a physico-chemical investigation of dipeptidyl peptidase IV (CD26) from human seminal plasma

scientific article published on 01 July 1997

ADP_EM: fast exhaustive multi-resolution docking for high-throughput coverage

scientific article published on 6 December 2006

Approaching Elastic Network Models to Molecular Dynamics Flexibility

article

Architecture of the pontin/reptin complex, essential in the assembly of several macromolecular complexes

scientific article

Changes in Microtubule Protofilament Number Induced by Taxol Binding to an Easily Accessible Site

scientific article published in Journal of Biological Chemistry

Conformational flexibility of bacterial RNA polymerase.

scientific article

DFprot: a webtool for predicting local chain deformability

scientific article published on 3 February 2007

Divergent Substrate-Binding Mechanisms Reveal an Evolutionary Specialization of Eukaryotic Prefoldin Compared to Its Archaeal Counterpart

scientific article published on 01 January 2007

DrugScorePPI knowledge-based potentials used as scoring and objective function in protein-protein docking

scientific article

Effective GTP-Replacing FtsZ Inhibitors and Antibacterial Mechanism of Action

scientific article published on 30 December 2014

End-To-End Cache System for Grid Computing: Design and Efficiency Analysis of a High-Throughput Bioinformatic Docking Application

Evaluation of secondary structure of proteins from UV circular dichroism spectra using an unsupervised learning neural network.

scientific article published in June 1993

Exploring Macromolecular Machine Motions

scholarly article by Jose Ramon Lopez-Blanco et al published January 2013 in Biophysical Journal

Exploring large macromolecular functional motions on clusters of multicore processors

scholarly article by José R. López-Blanco et al published August 2013 in Journal of Computational Physics

FRODOCK 2.0: fast protein-protein docking server

scientific article published on 12 March 2016

FRODOCK: a new approach for fast rotational protein-protein docking

scientific article published on 20 July 2009

Fast rotational matching of rigid bodies by fast Fourier transform acceleration of five degrees of freedom

scientific article published on 23 July 2003

Formation of an intricate helical bundle dictates the assembly of the 26S proteasome lid

scientific article

Grid Multi-Resolution Docking

Imods: Fast Exploration of Macromolecular Collective Motions

scholarly article by Jose Rámon López-Blanco et al published January 2014 in Biophysical Journal

In memoriam. Angel Ramírez Ortiz (1966-2008).

scientific article published in January 2010

Insights into Molecular Plasticity of Choline Binding Proteins (Pneumococcal Surface Proteins) by SAXS

article by Rubén M. Buey et al published January 2007 in Journal of Molecular Biology

Mega-Dalton Biomolecular Motion Captured from Electron Microscopy Reconstructions

scientific article published on 01 February 2003

Modeling Macromolecular Flexibility with Normal Mode Analysis in Internal Coordinates

scholarly article by Jose Ramon Lopez-Blanco et al published January 2012 in Biophysical Journal

Modeling Tricks and Fitting Techniques for Multiresolution Structures

article

Multi-resolution contour-based fitting of macromolecular structures

scientific article published on 01 March 2002

Near-atomic cryo-EM structure of PRC1 bound to the microtubule

scientific article published on 04 August 2016

New generation of elastic network models

scientific article published on 21 December 2015

Normal Mode Analysis Techniques in Structural Biology

article

Normal mode analysis of molecular motions in curvilinear coordinates on a non-Eckart body-frame: an application to protein torsion dynamics

article

Plasmid replication initiator RepB forms a hexamer reminiscent of ring helicases and has mobile nuclease domains

scientific article

Predictions of protein flexibility: first-order measures

scientific article published in September 2004

RCD+: Fast loop modeling server

scientific article published on 05 May 2016

Random Coordinate Descent with Spinor-matrices and Geometric Filters for Efficient Loop Closure

scientific article published on 4 March 2013

Spinor product computations for protein conformations

scientific article published on 8 May 2012

Structural basis for selective recognition of endogenous and microbial polysaccharides by macrophage receptor SIGN-R1

scientific article

Structural mechanism for tyrosine hydroxylase inhibition by dopamine and reactivation by Ser40 phosphorylation

scientific article published on 10 January 2022

Structural modeling from electron microscopy data

article

Structure and function of the transcription elongation factor GreB bound to bacterial RNA polymerase

scientific article published on August 2003

Structure of promoter-bound TFIID and model of human pre-initiation complex assembly

scientific journal article

Synthetic inhibitors of bacterial cell division targeting the GTP-binding site of FtsZ.

scientific article

Targeting the assembly of bacterial cell division protein FtsZ with small molecules

scientific article

The structural assembly switch of cell division protein FtsZ probed with fluorescent allosteric inhibitors.

scientific article published on 21 October 2016

The structural basis of flagellin detection by NAIP5: A strategy to limit pathogen immune evasion.

scientific article

Thorough Validation of Protein Normal Mode Analysis: A Comparative Study with Essential Dynamics

article

Topology representing neural networks reconcile biomolecular shape, structure, and dynamics

article

Tubulin Secondary Structure Analysis, Limited Proteolysis Sites, and Homology to FtsZ†

article

Understanding nucleotide-regulated FtsZ filament dynamics and the monomer assembly switch with large-scale atomistic simulations

scientific article published on November 2014

UsingSitusfor the registration of protein structures with low-resolution bead models from X-ray solution scattering

article

Visualization of DNA-induced conformational changes in the DNA repair kinase DNA-PKcs

scientific article published on November 2003

iMODFIT: efficient and robust flexible fitting based on vibrational analysis in internal coordinates

scientific article published on 30 August 2013

iMODS: internal coordinates normal mode analysis server.

scientific article published on 25 April 2014

iMod: multipurpose normal mode analysis in internal coordinates

scientific article

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