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Deliverables

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Publications

Fast simulations of multidimensional NMR spectra of proteins and peptides

Author(s): Thomas Vosegaard
Published in: Magnetic Resonance in Chemistry, Issue 56/6, 2018, Page(s) 438-448, ISSN 0749-1581
DOI: 10.1002/mrc.4663

Volta phase plate data collection facilitates image processing and cryo-EM structure determination

Author(s): Ottilie von Loeffelholz, Gabor Papai, Radostin Danev, Alexander G. Myasnikov, S. Kundhavai Natchiar, Isabelle Hazemann, Jean-François Ménétret, Bruno P. Klaholz
Published in: Journal of Structural Biology, Issue 202/3, 2018, Page(s) 191-199, ISSN 1047-8477
DOI: 10.1016/j.jsb.2018.01.003

Visualization of chemical modifications in the human 80S ribosome structure

Author(s): S. Kundhavai Natchiar, Alexander G. Myasnikov, Hanna Kratzat, Isabelle Hazemann, Bruno P. Klaholz
Published in: Nature, 2017, ISSN 0028-0836
DOI: 10.1038/nature24482

Function and Interactions of ERCC1-XPF in DNA Damage Response

Author(s): Maryam Faridounnia, Gert Folkers, Rolf Boelens
Published in: Molecules, Issue 23/12, 2018, Page(s) 3205, ISSN 1420-3049
DOI: 10.3390/molecules23123205

Real-Time Insights into Biological Events: In-Cell Processes and Protein-Ligand Interactions

Author(s): Linda Cerofolini, Stefano Giuntini, Letizia Barbieri, Matteo Pennestri, Anna Codina, Marco Fragai, Lucia Banci, Enrico Luchinat, Enrico Ravera
Published in: Biophysical Journal, Issue 116/2, 2019, Page(s) 239-247, ISSN 0006-3495
DOI: 10.1016/j.bpj.2018.11.3132

Validation of electron microscopy initial models via small angle X-ray scattering curves

Author(s): Amaya Jiménez, Slavica Jonic, Tomas Majtner, Joaquín Otón, Jose Luis Vilas, David Maluenda, Javier Mota, Erney Ramírez-Aportela, Marta Martínez, Yaiza Rancel, Joan Segura, Ruben Sánchez-García, Roberto Melero, Laura del Cano, Pablo Conesa, Lars Skjaerven, Roberto Marabini, Jose M Carazo, Carlos Oscar S Sorzano
Published in: Bioinformatics, Issue 35/14, 2018, Page(s) 2427-2433, ISSN 1367-4803
DOI: 10.1093/bioinformatics/bty985

Structures of influenza A virus RNA polymerase offer insight into viral genome replication

Author(s): Haitian Fan, Alexander P. Walker, Loïc Carrique, Jeremy R. Keown, Itziar Serna Martin, Dimple Karia, Jane Sharps, Narin Hengrung, Els Pardon, Jan Steyaert, Jonathan M. Grimes, Ervin Fodor
Published in: Nature, Issue 573/7773, 2019, Page(s) 287-290, ISSN 0028-0836
DOI: 10.1038/s41586-019-1530-7

CENP-A nucleosome clusters form rosette-like structures around HJURP during G1

Author(s): Leonid Andronov, Khalid Ouararhni, Isabelle Stoll, Bruno P. Klaholz, Ali Hamiche
Published in: Nature Communications, Issue 10/1, 2019, ISSN 2041-1723
DOI: 10.1038/s41467-019-12383-3

Deriving and refining atomic models in crystallography and cryo-EM: the latest Phenix tools to facilitate structure analysis

Author(s): Bruno P. Klaholz
Published in: Acta Crystallographica Section D Structural Biology, Issue 75/10, 2019, Page(s) 878-881, ISSN 2059-7983
DOI: 10.1107/s2059798319013391

Flexible workflows for on-the-fly electron-microscopy single-particle image processing using Scipion

Author(s): D. Maluenda, T. Majtner, P. Horvath, J. L. Vilas, A. Jiménez-Moreno, J. Mota, E. Ramírez-Aportela, R. Sánchez-García, P. Conesa, L. del Caño, Y. Rancel, Y. Fonseca, M. Martínez, G. Sharov, C.A. García, D. Strelak, R. Melero, R. Marabini, J. M. Carazo, C. O. S. Sorzano
Published in: Acta Crystallographica Section D Structural Biology, Issue 75/10, 2019, Page(s) 882-894, ISSN 2059-7983
DOI: 10.1107/s2059798319011860

DeepRes : a new deep-learning- and aspect-based local resolution method for electron-microscopy maps

Author(s): Erney Ramírez-Aportela, Javier Mota, Pablo Conesa, Jose Maria Carazo, Carlos Oscar S. Sorzano
Published in: IUCrJ, Issue 6/6, 2019, Page(s) 1054-1063, ISSN 2052-2525
DOI: 10.1107/s2052252519011692

On the complementarity of X-ray and NMR data

Author(s): Antonio Schirò, Azzurra Carlon, Giacomo Parigi, Garib Murshudov, Vito Calderone, Enrico Ravera, Claudio Luchinat
Published in: Journal of Structural Biology: X, Issue 4, 2020, Page(s) 100019, ISSN 2590-1524
DOI: 10.1016/j.yjsbx.2020.100019

Megabodies expand the nanobody toolkit for protein structure determination by single-particle cryo-EM

Author(s): Tomasz Uchański, Simonas Masiulis, Baptiste Fischer, Valentina Kalichuk, Alexandre Wohlkönig, Thomas Zögg, Han Remaut, Wim Vranken, A. Radu Aricescu, Els Pardon, Jan Steyaert
Published in: bioRxiv, 2019
DOI: 10.1101/812230

MicrographCleaner: a python package for cryo-EM micrograph segmentation using deep learning.

Author(s): Sanchez-Garcia R, Segura J, Maluenda D, Sorzano CO, Carazo JM.
Published in: bioRxiv, 2019

Megabodies expand the nanobody toolkit for protein structure determination by single-particle cryo-EM.

Author(s): Uchanski T, Masiulis S, Fischer B, Kalichuk V, Wohlkonig A, Zogg T, Remaut H, Vranken W, Aricescu AR, Pardon E, Steyaert J.
Published in: bioRxiv, 2019

TFIIH: A multi-subunit complex at the cross-roads of transcription and DNA repair

Author(s): Olga Kolesnikova, Laura Radu, Arnaud Poterszman
Published in: DNA Repair, Issue 115, 2019, Page(s) 21-67
DOI: 10.1016/bs.apcsb.2019.01.003

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