P. Chacón

发表

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

M. A. Andrade, P. Chacón, J. Merelo, 1993, Protein engineering.

Multi-resolution contour-based fitting of macromolecular structures.

P. Chacón, W. Wriggers, 2002, Journal of molecular biology.

New generation of elastic network models.

P. Chacón, J. López-Blanco, 2016, Current opinion in structural biology.

Thorough validation of protein normal mode analysis: a comparative study with essential dynamics.

P. Chacón, M. Orozco, M. Rueda, 2007, Structure.

Predictions of protein flexibility: First‐order measures

R. Abagyan, P. Chacón, J. Kovacs, 2004, Proteins.

DrugScorePPI Knowledge-Based Potentials Used as Scoring and Objective Function in Protein-Protein Docking

Holger Gohlke, Pablo Chacón, Dennis M. Krüger, 2014, PloS one.

Insights into molecular plasticity of choline binding proteins (pneumococcal surface proteins) by SAXS.

P. Chacón, R. Buey, B. Monterroso, 2007, Journal of molecular biology.

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

Pablo Chacón, Willy Wriggers, Julio A Kovacs, 2003, Acta crystallographica. Section D, Biological crystallography.

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

E. Nogales, P. Chacón, T. Kapoor, 2016, Proceedings of the National Academy of Sciences.

Continuous flexibility analysis of SARS-CoV-2 spike prefusion structures

H. Tagare, P. Chacón, J. Carazo, 2020, IUCrJ.

Mega-Dalton biomolecular motion captured from electron microscopy reconstructions.

Florence Tama, Pablo Chacón, Willy Wriggers, 2003, Journal of molecular biology.

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

P. Chacón, J. López-Blanco, J. A. Ruiz-Masó, 2009, The EMBO journal.

In memoriam

A. Tramontano, P. Chacón, U. Bastolla, 2009, Proteins.

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

P. Chacón, Andreas Martin, J. López-Blanco, 2013, Structure.

FAST NOISE-IMAGE REGISTRATION FOR ELECTRON MICROSCOPY

P. Chacón, J. Kovacs, Santiago García, 2015 .

Ultra-fast registration of 2D electron microscopy images

P. Chacón, J. Kovacs, Santiago García, 2012 .

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

E. Nogales, P. Chacón, J. López-Blanco, 2016, Nature.

Protein shape and assembly studied with X ray solution scattering: Fundaments and practice

P. Chacón, R. Buey, J. Díaz, 2009 .

Divergent substrate-binding mechanisms reveal an evolutionary specialization of eukaryotic prefoldin compared to its archaeal counterpart.

P. Chacón, P. Gómez-Puertas, J. Valpuesta, 2007, Structure.

Predicting Protein-protein Interactions with DrugScorePPI : Docking , Scoring , and in silico Alanine-scanning

José Ignacio Garzón, Dennis M. Krüger, P. Chacón, 2011 .

The Structure of Human Tyrosine Hydroxylase Reveals the Mechanism for Feedback Inhibition by Dopamine

P. Chacón, J. López-Blanco, Aurora Martínez, 2020 .

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

P. Chacón, J. López-Blanco, E. Ramírez-Aportela, 2014, Biophysical journal.

Fast mixing device for time-resolved synchrotron x-ray scattering studies of radiation sensitive proteins

P. Chacón, J. Díaz, G. Diakun, 1998 .

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

E. Nogales, P. Chacón, J. López-Blanco, 2016, Nature.

Structure of promoter-bound TFIID and insight into human PIC assembly

E. Nogales, P. Chacón, J. López-Blanco, 2016, Nature.

IN MEMORIAM

A. Tramontano, P. Chacón, U. Bastolla, 1979, Science.

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

P. Chacón, J. Hermoso, N. Silva-Martín, 2014, Structure.

Approaching Elastic Network Models to Molecular Dynamics Flexibility.

Modesto Orozco, Pablo Chacón, Laura Orellana, 2010, Journal of chemical theory and computation.

Structure and Function of the Transcription Elongation Factor GreB Bound to Bacterial RNA Polymerase

William J. Rice, Willy Wriggers, Pablo Chacon, 2003, Cell.

Conformational flexibility of bacterial RNA polymerase

Willy Wriggers, Pablo Chacon, P. Chacón, 2002, Proceedings of the National Academy of Sciences of the United States of America.

iMod: multipurpose normal mode analysis in internal coordinates

Pablo Chacón, José Ramón López-Blanco, José Ignacio Garzón, 2011, Bioinform..

Effective GTP-replacing FtsZ inhibitors and antibacterial mechanism of action.

P. Chacón, M. Artola, S. Sieber, 2015, ACS chemical biology.

iMODS: internal coordinates normal mode analysis server

Enrique S. Quintana-Ortí, José Ignacio Aliaga, Pablo Chacón, 2014, Nucleic Acids Res..

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

Pablo Chacón, José Ramón López-Blanco, Elise Adamson, 2017, Science.

Compartimentation in Replicator Models

Federico Morán, Alvaro Moreno, Juan Carlos Nuño, 1995, ECAL.

Local Normal Mode Analysis for Fast Loop Conformational Sampling

P. Chacón, U. Bastolla, J. López-Blanco, 2022, J. Chem. Inf. Model..

Structure of promoter-bound TFIID and insight into human PIC assembly

E. Nogales, P. Chacón, J. López-Blanco, 2016, Nature.

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

Pablo Chacón, Sudhakar Jha, Ernesto Arias-Palomo, 2008, Structure.

Structural modeling from electron microscopy data

Pablo Chacón, José Ramón López-Blanco, P. Chacón, 2015 .

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

P. Chacón, G. Diakun, J. Valpuesta, 1998, The Journal of Biological Chemistry.

Continuous flexibility analysis of SARS-CoV-2 Spike prefusion structures

Hemant D. Tagare, Roberto Melero, Roberto Marabini, 2020, bioRxiv.

Advances in Artificial Life

Federico Morán, Alvaro Moreno, Alvaro Moreno, 1995, Lecture Notes in Computer Science.

InterEvDock3: a combined template-based and free docking server with increased performance through explicit modeling of complex homologs and integration of covariation-based contact maps

P. Chacón, R. Guérois, P. Tufféry, 2021, Nucleic Acids Res..

Atomic-level evolutionary information improves protein-protein interface scoring

Pablo Chacón, Chloé Quignot, Raphael Guerois, 2020, bioRxiv.

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

Pablo Chacón, Laurence H Pearl, Oscar Llorca, 2003, The EMBO journal.

Tubulin secondary structure analysis, limited proteolysis sites, and homology to FtsZ.

P. Chacón, J. M. de Pereda, J. Andreu, 1996, Biochemistry.

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

Ruben Abagyan, Pablo Chacón, José Ignacio Garzón, 2007, Bioinform..

SOMCD: Method for evaluating protein secondary structure from UV circular dichroism spectra

P Chacón, P. Chacón, J. Merelo, 2001, Proteins.

FRODOCK 2.0: fast protein-protein docking server

Pablo Chacón, José Ramón López-Blanco, Erney Ramirez Aportela, 2016, Bioinform..

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

P. Chacón, J. Andreu, M. Martín-Fontecha, 2012, ACS chemical biology.

Predicting protein stability changes upon mutation using a simple orientational potential

P. Chacón, U. Bastolla, J. López-Blanco, 2023, Bioinformatics.

KORP-PL: a coarse-grained knowledge-based scoring function for protein-ligand interactions

Pablo Chacón, Sergei Grudinin, Maria Kadukova, 2020, Bioinform..

KORP: knowledge-based 6D potential for fast protein and loop modeling

Pablo Chacón, José Ramón López-Blanco, P. Chacón, 2019, Bioinform..

Low-resolution structures of proteins in solution retrieved from X-ray scattering with a genetic algorithm.

E Pantos, P Chacón, P. Chacón, 1998, Biophysical journal.

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

Eduardo Huedo, Rubén S. Montero, Ignacio Martín Llorente, 2010, Int. J. High Perform. Comput. Appl..

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

P. Chacón, M. Artola, I. Barasoain, 2013, ACS chemical biology.

Reconstruction of protein form with X-ray solution scattering and a genetic algorithm.

P Chacón, P. Chacón, F. Morán, 2000, Journal of molecular biology.

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

Pablo Chacón, Willy Wriggers, P. Chacón, 2001 .

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

Pablo Chacón, José Ramón Lopéz-Blanco, P. Chacón, 2013, Journal of structural biology.

Spinor product computations for protein conformations

Pablo Chacón, Pieter Chys, P. Chacón, 2012, J. Comput. Chem..

Current approaches to flexible loop modeling

P. Chacón, Juan Cortés, A. Barozet, 2021, Current research in structural biology.

Modeling Tricks and Ways & Means

Pablo Chacón, Willy Wriggers, P. Chacón, 2001 .

RCD+: Fast loop modeling server

Pablo Chacón, José Ramón López-Blanco, Yaohang Li, 2016, Nucleic Acids Res..

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

Florence Tama, Pablo Chacón, Julio A. Kovacs, 2004, Neurocomputing.

Exploring large macromolecular functional motions on clusters of multicore processors

Enrique S. Quintana-Ortí, Rosa M. Badia, José Ignacio Aliaga, 2013, J. Comput. Phys..

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

Ruben Abagyan, Carles Pons, Juan Fernández-Recio, 2009, Bioinform..

Normal Mode Analysis Techniques in Structural Biology

Osamu Miyashita, Pablo Chacón, José Ramón López-Blanco, 2014 .

Adaptation of a Multi-Resolution Docking Bioinformatics Application to the Grid

Eduardo Huedo, Rubén S. Montero, Ignacio Martín Llorente, 2007, J. Softw..

Structure of promoter-bound TFIID and insight into human PIC assembly

E. Nogales, P. Chacón, J. López-Blanco, 2016 .

CURVILINEAR DYNAMICS OF PROTEIN COMPLEXES

P. Chacón, J. Pesonen, K. Henriksson, 2012 .

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

Pablo Chacón, Janne Pesonen, Krister O. E. Henriksson, 2012, Journal of Mathematical Chemistry.

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

P. Chacón, Andreas Martin, J. López-Blanco, 2013, Structure.

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

P. Chacón, M. Artola, I. Barasoain, 2013, ACS chemical biology.