Infrastructure for NMR, EM and X-rays for translational research

Livrables

Second report on the interaction with industrial parties

Report on the interaction with industrial parties (EMBL-GR)

Delivery of 370 days of access as High-end Data Acquisition to SONNMRLSF at UU
Second report on outreach activities
Start of TA to HT integrated fragment screening in Grenoble

Start of TA to HT integrated fragment screening in Grenoble (EMBL-GR)

Secondary screening of a set of derivatives around an initial hit making use of the EU-OPENSCREEN library
Delivery of 145 days of access to NMR at CEITEC
Reports on feasibility studies on the promising translational targets
Setup for lower background for diffraction data on membrane proteins
Delivery of 100 days of access as Enhanced Support to SONNMRLSF at UU
At least two articles for the general public
Report on Coordination activities with Virtual Research Environments
Storage and queuing facilities at ESRF
120 samples through “Structural Audit”
Report on novel biophysical methods
Hiring a Project Manager
Protocols and tools for using ssNMR to study protein complexes associated with cellular compartments
Report on Coordination activities with PDBe and Elixir
Delivery of 120 samples through the Structural Audit procedure at NKI
Report on a model for future structural biology access in Europe
Delivery of 305 days of High-End Data Acquisition to NMR at BMRZ
TA access to HT crystallization and crystal mounting

TA access to HT crystallization and crystal mounting (EMBL-GR)

Delivery of 75 days of access to Cryo-EM at CSIC
First report on the interaction with industrial parties

Report on the interaction with industrial parties (EMBL-GR)

Report on financial sustainability
Delivery of 2389 hours of access to Beam MX at Diamond
Second report on conferences and meetings with iNEXT representation

Second report on conferences and meetings with iNEXT representation (EMBL-HH)

Report on the organization of TDC workshops
Access to NMR probe(s) optimized for the investigation of membrane proteins (binding studies/,screening)
Start of TA to integrated screening for focused libraries at EMBL-GR/ESRF
Workflow for EM-based determination of membrane protein structures

Workflow for EM-based determination of membrane protein structures (EMBL-HD)

Delivery of 78 days of full service ‘Protein to XTAL’at EMBL-HH
Data management system for ligand and fragment screening, extending ISPyB
Protocols for membrane protein structure determination by solid-state NMR
Protocols for correlative fluorescent labeling of proteins in vitro and in situ
Delivery of 130 days of access to cryo-EM at CEITEC
Second summary report on networking activities

Second summary report on networking activities (EMBL-HH)

Draft sustainability plan
Report on the attendance to EMBO and FEBS meetings

Report on the attendance to EMBO, FEBS and similar meetings

Automatic EM Image Processing workflow in the absence of structural flexibility
Automation of the on-line SEC setups at the partner SAXS beamlines
First summary report on networking activities

First summary report on networking activities (EMBL-HH)

Integrated submission system operational
Protocols and tools for protein interactions in mammalian cells by NMR
Delivery of 144 days of access to Titan KRIO cyro-EM at NeCEN
Delivery of 76 days of full service ‘Protein to SAXS at EMBL-HH
Delivery of 192 supervised access days to EMCF at EMBL-HD
Protocols for data acquisition for correlative CLEXM
Storage and queuing facilities at Diamond
Delivery of 5450 supervised access hours to ALMF at EMBL-HD
Report on comparative analysis of data models in all disciplines and strategy for integration
Delivery of 110 days of access to NMR at RALF-NMR
Delivery of 36 days of accessto Integrated fragment screening by MX at EMBL-GR
Report on the organization of annual user meetings
Delivery of 1555 hours of access to MX beamtime at EMBL-HH
Delivery of 14 days of access to Integrated compound screening (focused libraries) by MX at EMBL-GR
Protocols for RNA sample optimization and DNA/RNA delivery into bacterial and mammalian cells. for in-cell NMR studies
Access to an integrated miniaturized HT-SEC-SAXS set-up

Access to an integrated miniaturized HT-SEC-SAXS set-up (EMBL-HH)

Management Guidelines
Delivery of 70 days of access to Integrated Macromolecular Crystallography service at EMBL-GR
Optimized protocols for reconstitution of membrane proteins

Optimized protocols for reconstitution of membrane proteins (EMBL-HH)

Automated SAXS pipeline for membrane proteins, integrated into ISPyB

Automated SAXS pipeline for membrane proteins, integrated into ISPyB (EMBL-HH)

Automated pipelines for NMR-based structure determination accessible online
Delivery of 10 days of Structural Audit to NMR at BMRZ
Delivery of 2720 hours of access to Beam MX/SAXS at SOLEIL
Start of TA to HT integrated fragment screening at Diamond
Fully automatic screening, large scale X-ray data collection pipelines
Start of TA access to HT fragment screening by NMR
Delivery of 10 days of access as Structural Audit to SONNMRLSF at UU
Delivery of 100 days of Enhanced Support to NMR at BMRZ
Delivery of 212 days of access to NMR at FVB-FMP
Report on demands of the user community
Representation on RI bodies or Committees
Protocols for preparing ssNMR samples in bacterial and mammalian cell fractions and cells
15 structure validation projects through biophysics facility
Characterization of 120 “SAXS x-audit” samples at EMBL-HH
Delivery of 346 days of High-End Data Acquisition to NMR at CERM/CIRMMP
SONICC-based centring of membrane protein crystals
CRIMS support for ligand and fragment screening

CRIMS support for ligand and fragment screening (EMBL-GR)

Data management system for a EM workflows, extending ISPyB
Fragment library distributed to partners
Delivery of 775 hours of access to SAXS beamtime at EMBL-HH
Summary report on networking activities with industry

Summary report on networking activities with industry (EMBL-GR)

First report on outreach activities
First report on conferences and meetings with iNEXT representation

First report on conferences and meetings with iNEXT representation (EMBL-HH)

Delivery of access for 60 mail-in SAXS sessions at Diamond
Delivery of 30 samples analysed for Structural Audit at CSIC

Delivery of 30 samples analysed for Structural Audit at CSIC

Optimized workflows for ligand screening by NMR
Best practice workflows for cryo electron tomography specimen preparation
Fluorophore knock in cell lines for structural studies

Fluorophore knock in cell lines for structural studies (EMBL-HD)

Protocols for cooperation with ESFRI BMS RIs
5 integrated structure validation projects through combined access in biophysics and imaging
Delivery of access to 10 screening campaigns at Diamond
Delivery of 20 projects for biophysical characterisation at NKI
Delivery of 10 days of Structural Audit to NMR at CERM/CIRMMP
Delivery of 750 hours of access to the BioMAX beamline at MAXIV
Delivery of 100 days of Enhanced Support to NMR at CERM/CIRMMP
15 structure validation projects through advanced imaging facility
Delivery of 110 days of access to cryo-EM at Diamond

Publications

Design of coiled-coil protein-origami cages that self-assemble in vitro and in vivo

Auteurs: Ajasja Ljubetič, Fabio Lapenta, Helena Gradišar, Igor Drobnak, Jana Aupič, Žiga Strmšek, Duško Lainšček, Iva Hafner-Bratkovič, Andreja Majerle, Nuša Krivec, Mojca Benčina, Tomaž Pisanski, Tanja Ćirković Veličković, Adam Round, José María Carazo, Roberto Melero, Roman Jerala
Publié dans: Nature Biotechnology, Numéro 35(11), 2017, Page(s) 1094-1101, ISSN 1087-0156
Éditeur: Nature Publishing Group
DOI: 10.1038/nbt.3994

Structural Basis for Polyproline-Mediated Ribosome Stalling and Rescue by the Translation Elongation Factor EF-P

Auteurs: Paul Huter, Stefan Arenz, Lars V. Bock, Michael Graf, Jan Ole Frister, Andre Heuer, Lauri Peil, Agata L. Starosta, Ingo Wohlgemuth, Frank Peske, Jiří Nováček, Otto Berninghausen, Helmut Grubmüller, Tanel Tenson, Roland Beckmann, Marina V. Rodnina, Andrea C. Vaiana, Daniel N. Wilson
Publié dans: Molecular Cell, Numéro 68/3, 2017, Page(s) 515-527.e6, ISSN 1097-2765
Éditeur: Cell Press
DOI: 10.1016/j.molcel.2017.10.014

Characterization of the Conjugation Pattern in Large Polysaccharide-Protein Conjugates by NMR Spectroscopy

Auteurs: Stefano Giuntini, Evita Balducci, Linda Cerofolini, Enrico Ravera, Marco Fragai, Francesco Berti, Claudio Luchinat
Publié dans: Angewandte Chemie International Edition, Numéro 56/47, 2017, Page(s) 14997-15001, ISSN 1433-7851
Éditeur: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201709274

Structural Snapshots of α-1,3-Galactosyltransferase with Native Substrates: Insight into the Catalytic Mechanism of Retaining Glycosyltransferases

Auteurs: David Albesa-Jové, M. Ángela Sainz-Polo, Alberto Marina, Marcelo E. Guerin
Publié dans: Angewandte Chemie International Edition, Numéro 56/47, 2017, Page(s) 14853-14857, ISSN 1433-7851
Éditeur: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201707922

Enhanced Pru p 3 IgE-binding activity by selective free fatty acid-interaction

Auteurs: Pawel Dubiela, Roberta Aina, Dominika Polak, Sabine Geiselhart, Piotr Humeniuk, Barbara Bohle, Stefano Alessandri, Rebecca Del Conte, Francesca Cantini, Tomasz Borowski, Merima Bublin, Karin Hoffmann-Sommergruber
Publié dans: Journal of Allergy and Clinical Immunology, Numéro 140/6, 2017, Page(s) 1728-1731.e10, ISSN 0091-6749
Éditeur: Mosby Inc.
DOI: 10.1016/j.jaci.2017.06.016

Impact of Azidohomoalanine Incorporation on Protein Structure and Ligand Binding

Auteurs: Florian Lehner, Denis Kudlinzki, Christian Richter, Henrike M. Müller-Werkmeister, Katharina B. Eberl, Jens Bredenbeck, Harald Schwalbe, Robert Silvers
Publié dans: ChemBioChem, Numéro 18/23, 2017, Page(s) 2340-2350, ISSN 1439-4227
Éditeur: John Wiley & Sons Ltd.
DOI: 10.1002/cbic.201700437

A molecular chaperone activity of CCS restores the maturation of SOD1 fALS mutants

Auteurs: Enrico Luchinat, Letizia Barbieri, Lucia Banci
Publié dans: Scientific Reports, Numéro 7/1, 2017, ISSN 2045-2322
Éditeur: Nature Publishing Group
DOI: 10.1038/s41598-017-17815-y

Structural basis for genome wide recognition of 5-bp GC motifs by SMAD transcription factors

Auteurs: Pau Martin-Malpartida, Marta Batet, Zuzanna Kaczmarska, Regina Freier, Tiago Gomes, Eric Aragón, Yilong Zou, Qiong Wang, Qiaoran Xi, Lidia Ruiz, Angela Vea, José A. Márquez, Joan Massagué, Maria J. Macias
Publié dans: Nature Communications, Numéro 8/1, 2017, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-017-02054-6

Structure of outer membrane protein G in lipid bilayers

Auteurs: Joren S. Retel, Andrew J. Nieuwkoop, Matthias Hiller, Victoria A. Higman, Emeline Barbet-Massin, Jan Stanek, Loren B. Andreas, W. Trent Franks, Barth-Jan van Rossum, Kutti R. Vinothkumar, Lieselotte Handel, Gregorio Giuseppe de Palma, Benjamin Bardiaux, Guido Pintacuda, Lyndon Emsley, Werner Kühlbrandt, Hartmut Oschkinat
Publié dans: Nature Communications, Numéro 8/1, 2017, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-017-02228-2

Structural and functional dissection of the DH and PH domains of oncogenic Bcr-Abl tyrosine kinase

Auteurs: Sina Reckel, Charlotte Gehin, Delphine Tardivon, Sandrine Georgeon, Tim Kükenshöner, Frank Löhr, Akiko Koide, Lena Buchner, Alejandro Panjkovich, Aline Reynaud, Sara Pinho, Barbara Gerig, Dmitri Svergun, Florence Pojer, Peter Güntert, Volker Dötsch, Shohei Koide, Anne-Claude Gavin, Oliver Hantschel
Publié dans: Nature Communications, Numéro 8/1, 2017, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-017-02313-6

Atomic structural details of a protein grafted onto gold nanoparticles

Auteurs: Stefano Giuntini, Linda Cerofolini, Enrico Ravera, Marco Fragai, Claudio Luchinat
Publié dans: Scientific Reports, Numéro 7/1, 2017, ISSN 2045-2322
Éditeur: Nature Publishing Group
DOI: 10.1038/s41598-017-18109-z

Molecular mechanism for the subversion of the retromer coat by the Legionella effector RidL

Auteurs: Miguel Romano-Moreno, Adriana L. Rojas, Chad D. Williamson, David C. Gershlick, María Lucas, Michail N. Isupov, Juan S. Bonifacino, Matthias P. Machner, Aitor Hierro
Publié dans: Proceedings of the National Academy of Sciences, Numéro 114/52, 2017, Page(s) E11151-E11160, ISSN 0027-8424
Éditeur: National Academy of Sciences
DOI: 10.1073/pnas.1715361115

Long-range paramagnetic NMR data can provide a closer look on metal coordination in metalloproteins

Auteurs: Linda Cerofolini, Tommaso Staderini, Stefano Giuntini, Enrico Ravera, Marco Fragai, Giacomo Parigi, Roberta Pierattelli, Claudio Luchinat
Publié dans: JBIC Journal of Biological Inorganic Chemistry, Numéro 23/1, 2018, Page(s) 71-80, ISSN 0949-8257
Éditeur: Springer Verlag
DOI: 10.1007/s00775-017-1511-y

Intracellular metal binding and redox behavior of human DJ-1

Auteurs: Letizia Barbieri, Enrico Luchinat, Lucia Banci
Publié dans: JBIC Journal of Biological Inorganic Chemistry, Numéro 23/1, 2018, Page(s) 61-69, ISSN 0949-8257
Éditeur: Springer Verlag
DOI: 10.1007/s00775-017-1509-5

Dynamic control of RSK complexes by phosphoswitch-based regulation

Auteurs: Gergő Gógl, Beáta Biri-Kovács, Ádám L. Póti, Henrietta Vadászi, Bálint Szeder, Andrea Bodor, Gitta Schlosser, András Ács, Lilla Turiák, László Buday, Anita Alexa, László Nyitray, Attila Reményi
Publié dans: The FEBS Journal, Numéro 285/1, 2018, Page(s) 46-71, ISSN 1742-464X
Éditeur: Blackwell Publishing Inc.
DOI: 10.1111/febs.14311

Combined 1H-Detected Solid-State NMR Spectroscopy and Electron Cryotomography to Study Membrane Proteins across Resolutions in Native Environments

Auteurs: Baker LA, Sinnige T, Schellenberger P, de Keyzer J, Siebert CA, Driessen AJM, Baldus M, Grünewald K
Publié dans: Structure, Numéro 26/1, 2018, Page(s) 161-170.e3, ISSN 0969-2126
Éditeur: Elsevier

Structural basis of RNA polymerase III transcription initiation

Auteurs: Guillermo Abascal-Palacios, Ewan Phillip Ramsay, Fabienne Beuron, Edward Morris, Alessandro Vannini
Publié dans: Nature, Numéro 553/7688, 2018, Page(s) 301-306, ISSN 0028-0836
Éditeur: Nature Publishing Group
DOI: 10.1038/nature25441

1 H NMR Spectroscopy of [FeFe] Hydrogenase: Insight into the Electronic Structure of the Active Site

Auteurs: Sigrun Rumpel, Enrico Ravera, Constanze Sommer, Edward Reijerse, Christophe Farès, Claudio Luchinat, Wolfgang Lubitz
Publié dans: Journal of the American Chemical Society, Numéro 140/1, 2017, Page(s) 131-134, ISSN 0002-7863
Éditeur: American Chemical Society
DOI: 10.1021/jacs.7b11196

Structural plasticity of the N-terminal capping helix of the TPR domain of kinesin light chain

Auteurs: The Quyen Nguyen, Mélanie Chenon, Fernando Vilela, Christophe Velours, Magali Aumont-Nicaise, Jessica Andreani, Paloma F. Varela, Paola Llinas, Julie Ménétrey
Publié dans: PLOS ONE, Numéro October 16, 2017, 2017, Page(s) 1-20, ISSN 1932-6203
Éditeur: Public Library of Science
DOI: 10.1371/journal.pone.0186354.s004

Saposin Lipid Nanoparticles: A Highly Versatile and Modular Tool for Membrane Protein Research

Auteurs: Flayhan A, Mertens HDT, Ural-Blimke Y, Martinez Molledo M, Svergun DI, Löw C
Publié dans: Structure, Numéro 26, 2018, Page(s) 345-355, ISSN 0969-2126
Éditeur: Cell Press
DOI: 10.1016/j.str.2018.01.007

CHROMIXS: automatic and interactive analysis of chromatography-coupled small-angle X-ray scattering data

Auteurs: Alejandro Panjkovich, Dmitri I Svergun
Publié dans: Bioinformatics, Numéro 28 December 2017, 2017, Page(s) 1-3, ISSN 1367-4803
Éditeur: Oxford University Press
DOI: 10.1093/bioinformatics/btx846

Automated harvesting and processing of protein crystals through laser photoablation

Auteurs: Ulrich Zander, Guillaume Hoffmann, Irina Cornaciu, Jean-Pierre Marquette, Gergely Papp, Christophe Landret, Gaël Seroul, Jérémy Sinoir, Martin Röwer, Frank Felisaz, Sonia Rodriguez-Puente, Vincent Mariaule, Peter Murphy, Magali Mathieu, Florent Cipriani, José Antonio Márquez
Publié dans: Acta Crystallographica Section D Structural Biology, Numéro 72/4, 2016, Page(s) 454-466, ISSN 2059-7983
Éditeur: John Wiley & Sons Ltd
DOI: 10.1107/S2059798316000954

RavN is a member of a previously unrecognized group of Legionella pneumophila E3 ubiquitin ligases

Auteurs: Yi-Han Lin, María Lucas, Timothy R. Evans, Guillermo Abascal-Palacios, Alexandra G. Doms, Nicole A. Beauchene, Adriana L. Rojas, Aitor Hierro, Matthias P. Machner
Publié dans: PLOS Pathogens, Numéro 14/2, 2018, Page(s) e1006897, ISSN 1553-7374
Éditeur: PLOS
DOI: 10.1371/journal.ppat.1006897

An allosteric binding site of the α7 nicotinic acetylcholine receptor revealed in a humanized acetylcholine-binding protein

Auteurs: Florian Delbart, Marijke Brams, Fabian Gruss, Sam Noppen, Steve Peigneur, Sandro Boland, Patrick Chaltin, Jose Brandao-Neto, Frank von Delft, Wouter G. Touw, Robbie P. Joosten, Sandra Liekens, Jan Tytgat, Chris Ulens
Publié dans: Journal of Biological Chemistry, Numéro 293/7, 2018, Page(s) 2534-2545, ISSN 0021-9258
Éditeur: American Society for Biochemistry and Molecular Biology Inc.
DOI: 10.1074/jbc.M117.815316

Evaluation of the Stability of DNA i-Motifs in the Nuclei of Living Mammalian Cells

Auteurs: Simon Dzatko, Michaela Krafcikova, Robert Hänsel-Hertsch, Tomas Fessl, Radovan Fiala, Tomas Loja, Daniel Krafcik, Jean-Louis Mergny, Silvie Foldynova-Trantirkova, Lukas Trantirek
Publié dans: Angewandte Chemie International Edition, Numéro 57/8, 2018, Page(s) 2165-2169, ISSN 1433-7851
Éditeur: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201712284

A family of unconventional deubiquitinases with modular chain specificity determinants

Auteurs: Thomas Hermanns, Christian Pichlo, Ilka Woiwode, Karsten Klopffleisch, Katharina F. Witting, Huib Ovaa, Ulrich Baumann, Kay Hofmann
Publié dans: Nature Communications, Numéro 9/1, 2018, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-018-03148-5

Multi-channel in situ dynamic light scattering instrumentation enhancing biological small-angle X-ray scattering experiments at the PETRA III beamline P12

Auteurs: Sven Falke, Karsten Dierks, Clement Blanchet, Melissa Graewert, Florent Cipriani, Rob Meijers, Dmitri Svergun, Christian Betzel
Publié dans: Journal of Synchrotron Radiation, Numéro 25/2, 2018, Page(s) 361-372, ISSN 1600-5775
Éditeur: IUCr
DOI: 10.1107/S1600577517017568

Homology-based hydrogen bond information improves crystallographic structures in the PDB

Auteurs: Bart van Beusekom, Wouter G. Touw, Mahidhar Tatineni, Sandeep Somani, Gunaretnam Rajagopal, Jinquan Luo, Gary L. Gilliland, Anastassis Perrakis, Robbie P. Joosten
Publié dans: Protein Science, Numéro 27/3, 2018, Page(s) 798-808, ISSN 0961-8368
Éditeur: Cold Spring Harbor Laboratory Press
DOI: 10.1002/pro.3353

Solution NMR structure of yeast Rcf1, a protein involved in respiratory supercomplex formation

Auteurs: Shu Zhou, Pontus Pettersson, Jingjing Huang, Johannes Sjöholm, Dan Sjöstrand, Régis Pomès, Martin Högbom, Peter Brzezinski, Lena Mäler, Pia Ädelroth
Publié dans: Proceedings of the National Academy of Sciences, Numéro 115/12, 2018, Page(s) 3048-3053, ISSN 0027-8424
Éditeur: National Academy of Sciences
DOI: 10.1073/pnas.1712061115

Multispecific Substrate Recognition in a Proton-Dependent Oligopeptide Transporter.

Auteurs: Martinez Molledo M, Quistgaard EM, Flayhan A, Pieprzyk J, Löw C
Publié dans: Structure, Numéro Mar 6;26(3), 2018, Page(s) 467-476, ISSN 0969-2126
Éditeur: Elsevier

A multidisciplinary study of 3-(β- d -glucopyranosyl)-5-substituted-1,2,4-triazole derivatives as glycogen phosphorylase inhibitors: Computation, synthesis, crystallography and kinetics reveal new potent inhibitors

Auteurs: Sándor Kun, Jaida Begum, Efthimios Kyriakis, Evgenia C.V. Stamati, Thomas A. Barkas, Eszter Szennyes, Éva Bokor, Katalin E. Szabó, George A. Stravodimos, Ádám Sipos, Tibor Docsa, Pál Gergely, Colin Moffatt, Myrto S. Patraskaki, Maria C. Kokolaki, Alkistis Gkerdi, Vassiliki T. Skamnaki, Demetres D. Leonidas, László Somsák, Joseph M. Hayes
Publié dans: European Journal of Medicinal Chemistry, Numéro 147, 2018, Page(s) 266-278, ISSN 0223-5234
Éditeur: Elsevier BV
DOI: 10.1016/j.ejmech.2018.01.095

Structural model of human dUTPase in complex with a novel proteinaceous inhibitor

Auteurs: Kinga Nyíri, Haydyn D. T. Mertens, Borbála Tihanyi, Gergely N. Nagy, Bianka Kőhegyi, Judit Matejka, Matthew J. Harris, Judit E. Szabó, Veronika Papp-Kádár, Veronika Németh-Pongrácz, Olivér Ozohanics, Károly Vékey, Dmitri I. Svergun, Antoni J. Borysik, Beáta G. Vértessy
Publié dans: Scientific Reports, Numéro 8/1, 2018, ISSN 2045-2322
Éditeur: Nature Publishing Group
DOI: 10.1038/s41598-018-22145-8

Structures of Teneurin adhesion receptors reveal an ancient fold for cell-cell interaction

Auteurs: Verity A. Jackson, Dimphna H. Meijer, Maria Carrasquero, Laura S. van Bezouwen, Edward D. Lowe, Colin Kleanthous, Bert J. C. Janssen, Elena Seiradake
Publié dans: Nature Communications, Numéro 9/1, 2018, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-018-03460-0

Structural changes of TasA in biofilm formation of Bacillus subtilis

Auteurs: Anne Diehl, Yvette Roske, Linda Ball, Anup Chowdhury, Matthias Hiller, Noel Molière, Regina Kramer, Daniel Stöppler, Catherine L. Worth, Brigitte Schlegel, Martina Leidert, Nils Cremer, Natalja Erdmann, Daniel Lopez, Heike Stephanowitz, Eberhard Krause, Barth-Jan van Rossum, Peter Schmieder, Udo Heinemann, Kürşad Turgay, Ümit Akbey, Hartmut Oschkinat
Publié dans: Proceedings of the National Academy of Sciences, Numéro 115/13, 2018, Page(s) 3237-3242, ISSN 0027-8424
Éditeur: National Academy of Sciences
DOI: 10.1073/pnas.1718102115

1H, 13C, and 15N chemical shift assignments of a G-quadruplex forming sequence within the KRAS proto-oncogene promoter region

Auteurs: Julien Marquevielle, M. V. Vasantha Kumar, Jean-Louis Mergny, Gilmar F. Salgado
Publié dans: Biomolecular NMR Assignments, Numéro 12/1, 2018, Page(s) 123-127, ISSN 1874-2718
Éditeur: Springer Verlag
DOI: 10.1007/s12104-017-9793-0

A General Small-Angle X-ray Scattering-Based Screening Protocol Validated for Protein–RNA Interactions

Auteurs: Po-chia Chen, Pawel Masiewicz, Vladimir Rybin, Dmitri Svergun, Janosch Hennig
Publié dans: ACS Combinatorial Science, Numéro 20/4, 2018, Page(s) 197-202, ISSN 2156-8952
Éditeur: American Chemical Society
DOI: 10.1021/acscombsci.8b00007

Structural characterization of the intrinsically disordered domain of Mycobacterium tuberculosis protein tyrosine kinase A

Auteurs: Anna Niesteruk, Marie Hutchison, Sridhar Sreeramulu, Hendrik R.A. Jonker, Christian Richter, Rupert Abele, Christoph Bock, Harald Schwalbe
Publié dans: FEBS Letters, Numéro 592/7, 2018, Page(s) 1233-1245, ISSN 0014-5793
Éditeur: Elsevier BV
DOI: 10.1002/1873-3468.13022

RPAP3 provides a flexible scaffold for coupling HSP90 to the human R2TP co-chaperone complex

Auteurs: Fabrizio Martino, Mohinder Pal, Hugo Muñoz-Hernández, Carlos F. Rodríguez, Rafael Núñez-Ramírez, David Gil-Carton, Gianluca Degliesposti, J. Mark Skehel, S. Mark Roe, Chrisostomos Prodromou, Laurence H. Pearl, Oscar Llorca
Publié dans: Nature Communications, Numéro 9/1, 2018, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-018-03942-1

The cysteine-reactive small molecule ebselen facilitates effective SOD1 maturation

Auteurs: Michael J. Capper, Gareth S. A. Wright, Letizia Barbieri, Enrico Luchinat, Eleonora Mercatelli, Luke McAlary, Justin J. Yerbury, Paul M. O’Neill, Svetlana V. Antonyuk, Lucia Banci, S. Samar Hasnain
Publié dans: Nature Communications, Numéro 9/1, 2018, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-018-04114-x

Functional interaction of low-homology FRPs from different cyanobacteria with Synechocystis OCP

Auteurs: Yury B. Slonimskiy, Eugene G. Maksimov, Evgeny P. Lukashev, Marcus Moldenhauer, Cy M. Jeffries, Dmitri I. Svergun, Thomas Friedrich, Nikolai N. Sluchanko
Publié dans: Biochimica et Biophysica Acta (BBA) - Bioenergetics, Numéro 1859/5, 2018, Page(s) 382-393, ISSN 0005-2728
Éditeur: Elsevier BV
DOI: 10.1016/j.bbabio.2018.03.001

Integrated beamline control and data acquisition for small-angle X-ray scattering at the P12 BioSAXS beamline at PETRAIII storage ring DESY

Auteurs: Nelly R. Hajizadeh, Daniel Franke, Dmitri I. Svergun
Publié dans: Journal of Synchrotron Radiation, Numéro 25/3, 2018, Page(s) 906-914, ISSN 1600-5775
Éditeur: IUCr
DOI: 10.1107/S1600577518005398

Consensus Bayesian assessment of protein molecular mass from solution X-ray scattering data

Auteurs: Nelly R. Hajizadeh, Daniel Franke, Cy M. Jeffries, Dmitri I. Svergun
Publié dans: Scientific Reports, Numéro 8/1, 2018, ISSN 2045-2322
Éditeur: Nature Publishing Group
DOI: 10.1038/s41598-018-25355-2

Structure of the hexagonal surface layer on Caulobacter crescentus cells

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Studying assembly of the BAM complex in native membranes by cellular solid-state NMR spectroscopy

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Experimental and computational framework for a dynamic protein atlas of human cell division

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Insight into small molecule binding to the neonatal Fc receptor by X-ray crystallography and 100 kHz magic-angle-spinning NMR

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Urease Inhibition in the Presence of N -( n -Butyl)thiophosphoric Triamide, a Suicide Substrate: Structure and Kinetics

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Structural and functional studies of the metalloregulator Fur identify a promoter-binding mechanism and its role in Francisella tularensis virulence

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OCP–FRP protein complex topologies suggest a mechanism for controlling high light tolerance in cyanobacteria

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The Regulation of Axon Diameter: From Axonal Circumferential Contractility to Activity-Dependent Axon Swelling

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Disordered Peptides Looking for Their Native Environment: Structural Basis of CB1 Endocannabinoid Receptor Binding to Pepcans

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NVP-BHG712: Effects of Regioisomers on the Affinity and Selectivity toward the EPHrin Family

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On the Implication of Water on Fragment-to-Ligand Growth in Kinase Binding Thermodynamics

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Subtomogram averaging of COPII assemblies reveals how coat organization dictates membrane shape

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Molecular Recognition of a Thomsen-Friedenreich Antigen Mimetic Targeting Human Galectin-3

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The first single particle analysis Map Challenge: A summary of the assessments

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Recombinant production of A1S_0222 from Acinetobacter baumannii ATCC 17978 and confirmation of its DNA-(adenine N6)-methyltransferase activity

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IBA57 Recruits ISCA2 to Form a [2Fe-2S] Cluster-Mediated Complex

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DNA recognition by Arabidopsis transcription factors ABI3 and NGA1

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Probing the Architecture of a Multi-PDZ Domain Protein: Structure of PDZK1 in Solution

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Structure of Mutant Hepatitis B Core Protein Capsids with Premature Secretion Phenotype

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Map challenge: Analysis using a pair comparison method based on Fourier shell correlation

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A tumor-targeted trimeric 4-1BB-agonistic antibody induces potent anti-tumor immunity without systemic toxicity

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Function and Interactions of ERCC1-XPF in DNA Damage Response

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Assessing protein conformational landscapes: integration of DEER data in Maximum Occurrence analysis

Auteurs: Lucia Gigli, Witold Andrałojć, Arina Dalaloyan, Giacomo Parigi, Enrico Ravera, Daniella Goldfarb, Claudio Luchinat
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Local and Global Dynamics in Intrinsically Disordered Synuclein

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Essential but sparse collagen hydroxylysyl post-translational modifications detected by DNP NMR

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Using Scipion for stream image processing at Cryo-EM facilities

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Allosteric Inhibition of a Mammalian Lectin

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β 2 -Type Amyloidlike Fibrils of Poly- l -glutamic Acid Convert into Long, Highly Ordered Helices upon Dissolution in Dimethyl Sulfoxide

Auteurs: Sylwia Berbeć, Robert Dec, Dmitry Molodenskiy, Beata Wielgus-Kutrowska, Christian Johannessen, Agnieszka Hernik-Magoń, Fernando Tobias, Agnieszka Bzowska, Grzegorz Ścibisz, Timothy A. Keiderling, Dmitri Svergun, Wojciech Dzwolak
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Biochemical and structural studies reveal differences and commonalities among cap-snatching endonucleases from segmented negative-strand RNA viruses

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Protein Glycosylation through Sulfur Fluoride Exchange (SuFEx) Chemistry: The Key Role of a Fluorosulfate Thiolactoside

Auteurs: Alberto Marra, Jiajia Dong, Tiancheng Ma, Stefano Giuntini, Elisa Crescenzo, Linda Cerofolini, Marco Martinucci, Claudio Luchinat, Marco Fragai, Cristina Nativi, Alessandro Dondoni
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Effects of Boron Supplementation on Peripartum Dairy Cows' Health.

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Direct assessment of substrate binding to the Neurotransmitter:Sodium Symporter LeuT by solid state NMR

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Cryo-EM structure of the spinach chloroplast ribosome reveals the location of plastid-specific ribosomal proteins and extensions

Auteurs: Michael Graf, Stefan Arenz, Paul Huter, Alexandra Dönhöfer, Jiří Nováček, Daniel N. Wilson
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Structural Mechanism for Cargo Recognition by the Retromer Complex

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Structure determination of a major facilitator peptide transporter: Inward facing PepTSt from Streptococcus thermophilus crystallized in space group P3121

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[4Fe-4S] Cluster Assembly in Mitochondria and Its Impairment by Copper

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Gelified Biofluids for High-Resolution Magic Angle Spinning 1H NMR Analysis: The Case of Urine

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Three-Dimensional Structure of Full-Length NtrX, an Unusual Member of the NtrC Family of Response Regulators

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Decision-Making in Cascade Complexes Harboring crRNAs of Altered Length

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Engineered Carbonic Anhydrase VI-Mimic Enzyme Switched the Structure and Affinities of Inhibitors

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Cryo-EM structure of pleconaril-resistant rhinovirus-B5 complexed to the antiviral OBR-5-340 reveals unexpected binding site

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What are the methodological and theoretical prospects for paramagnetic NMR in structural biology? A glimpse into the crystal ball

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Atomic structure of the Epstein-Barr virus portal

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Monitoring DNA–Ligand Interactions in Living Human Cells Using NMR Spectroscopy

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Crystal structures of cholera toxin in complex with fucosylated receptors point to importance of secondary binding site

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Detection of nucleic acids and other low abundance components in native bone and osteosarcoma extracellular matrix by isotope enrichment and DNP-enhanced NMR

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Molecular determinants of the mechanism and substrate specificity of Clostridium difficile proline-proline endopeptidase-1

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Structures of T7 bacteriophage portal and tail suggest a viral DNA retention and ejection mechanism

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

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Integrative Approaches in Structural Biology: A More Complete Picture from the Combination of Individual Techniques

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Structural Basis of Transcription: RNA Polymerase Backtracking and Its Reactivation

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Molecular tuning of farnesoid X receptor partial agonism

Auteurs: Daniel Merk, Sridhar Sreeramulu, Denis Kudlinzki, Krishna Saxena, Verena Linhard, Santosh L. Gande, Fabian Hiller, Christina Lamers, Ewa Nilsson, Anna Aagaard, Lisa Wissler, Niek Dekker, Krister Bamberg, Manfred Schubert-Zsilavecz, Harald Schwalbe
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High-throughput stability screening for detergent-solubilized membrane proteins

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DNP-Supported Solid-State NMR Spectroscopy of Proteins Inside Mammalian Cells

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Joint X-ray/NMR structure refinement of multidomain/multisubunit systems

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High-throughput peptide-MHC complex generation and kinetic screenings of TCRs with peptide-receptive HLA-A*02:01 molecules

Auteurs: Andreas Moritz, Raghavendra Anjanappa, Claudia Wagner, Sebastian Bunk, Martin Hofmann, Gabriele Pszolla, Ankur Saikia, Maria Garcia-Alai, Rob Meijers, Hans-Georg Rammensee, Sebastian Springer, Dominik Maurer
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Empty peptide-receptive MHC class I molecules for efficient detection of antigen-specific T cells

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Absolute quantification of cohesin, CTCF and their regulators in human cells

Auteurs: Johann Holzmann, Antonio Z Politi, Kota Nagasaka, Merle Hantsche-Grininger, Nike Walther, Birgit Koch, Johannes Fuchs, Gerhard Dürnberger, Wen Tang, Rene Ladurner, Roman R Stocsits, Georg A Busslinger, Béla Novák, Karl Mechtler, Iain Finley Davidson, Jan Ellenberg, Jan-Michael Peters
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A novel druggable interprotomer pocket in the capsid of rhino- and enteroviruses

Auteurs: Rana Abdelnabi, James A. Geraets, Yipeng Ma, Carmen Mirabelli, Justin W. Flatt, Aušra Domanska, Leen Delang, Dirk Jochmans, Timiri Ajay Kumar, Venkatesan Jayaprakash, Barij Nayan Sinha, Pieter Leyssen, Sarah J. Butcher, Johan Neyts
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Determining cellular CTCF and cohesin abundances to constrain 3D genome models

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Auteurs: Arne Raasakka, Salla Ruskamo, Robert Barker, Oda C. Krokengen, Guro H. Vatne, Cecilie K. Kristiansen, Erik I. Hallin, Maximilian W. A. Skoda, Ulrich Bergmann, Hanna Wacklin-Knecht, Nykola C. Jones, Søren V. Hoffmann, Petri Kursula
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An Emerin LEM-Domain Mutation Impairs Cell Response to Mechanical Stress

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Protective Dps–DNA co‐crystallization in stressed cells: an in vitro structural study by small‐angle X‐ray scattering and cryo‐electron tomography

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The structure of a membrane adenylyl cyclase bound to an activated stimulatory G protein

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Side chain to main chain hydrogen bonds stabilize a polyglutamine helix in a transcription factor

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A Tail-Based Mechanism Drives Nucleosome Demethylation by the LSD2/NPAC Multimeric Complex

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Structural characterization of a protein adsorbed on aluminum hydroxide adjuvant in vaccine formulation

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The carbon monoxide dehydrogenase accessory protein CooJ is a histidine-rich multidomain dimer containing an unexpected Ni(II)-binding site

Auteurs: Marila Alfano, Julien Pérard, Philippe Carpentier, Christian Basset, Barbara Zambelli, Jennifer Timm, Serge Crouzy, Stefano Ciurli, Christine Cavazza
Publié dans: Journal of Biological Chemistry, Numéro 294/19, 2019, Page(s) 7601-7614, ISSN 0021-9258
Éditeur: American Society for Biochemistry and Molecular Biology Inc.
DOI: 10.1074/jbc.ra119.008011

Structural Basis for the Action of an All-Purpose Transcription Anti-termination Factor

Auteurs: Ferdinand Krupp, Nelly Said, Yong-Heng Huang, Bernhard Loll, Jörg Bürger, Thorsten Mielke, Christian M.T. Spahn, Markus C. Wahl
Publié dans: Molecular Cell, Numéro 74/1, 2019, Page(s) 143-157.e5, ISSN 1097-2765
Éditeur: Cell Press
DOI: 10.1016/j.molcel.2019.01.016

High-Resolution Crystal Structure of Endoplasmic Reticulum Aminopeptidase 1 with Bound Phosphinic Transition-State Analogue Inhibitor

Auteurs: Petros Giastas, Margarete Neu, Paul Rowland, Efstratios Stratikos
Publié dans: ACS Medicinal Chemistry Letters, Numéro 10/5, 2019, Page(s) 708-713, ISSN 1948-5875
Éditeur: American Chemical Society
DOI: 10.1021/acsmedchemlett.9b00002

New insights into the tetrameric family of the Fur metalloregulators

Auteurs: S. Nader, J. Pérard, P. Carpentier, L. Arnaud, S. Crouzy, I. Michaud-Soret
Publié dans: BioMetals, Numéro 32/3, 2019, Page(s) 501-519, ISSN 0966-0844
Éditeur: Kluwer Academic Publishers
DOI: 10.1007/s10534-019-00201-8

MXCuBE2 : the dawn of MXCuBE Collaboration

Auteurs: Marcus Oscarsson, Antonia Beteva, David Flot, Elspeth Gordon, Matias Guijarro, Gordon Leonard, Sean McSweeney, Stephanie Monaco, Christoph Mueller-Dieckmann, Max Nanao, Didier Nurizzo, Alexander N. Popov, David von Stetten, Olof Svensson, Vicente Rey-Bakaikoa, Idrissou Chado, Leonard M. G. Chavas, Laurent Gadea, Patrick Gourhant, Tatiana Isabet, Pierre Legrand, Martin Savko, Serena Sirigu, William
Publié dans: Journal of Synchrotron Radiation, Numéro 26/2, 2019, Page(s) 393-405, ISSN 1600-5775
Éditeur: -
DOI: 10.1107/s1600577519001267

Cryo-EM fibril structures from systemic AA amyloidosis reveal the species complementarity of pathological amyloids

Auteurs: Falk Liberta, Sarah Loerch, Matthies Rennegarbe, Angelika Schierhorn, Per Westermark, Gunilla T. Westermark, Bouke P. C. Hazenberg, Nikolaus Grigorieff, Marcus Fändrich, Matthias Schmidt
Publié dans: Nature Communications, Numéro 10/1, 2019, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-019-09033-z

Cryo-EM structure of a light chain-derived amyloid fibril from a patient with systemic AL amyloidosis

Auteurs: Lynn Radamaker, Yin-Hsi Lin, Karthikeyan Annamalai, Stefanie Huhn, Ute Hegenbart, Stefan O. Schönland, Günter Fritz, Matthias Schmidt, Marcus Fändrich
Publié dans: Nature Communications, Numéro 10/1, 2019, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-019-09032-0

Structure of Prototypic Peptide Transporter DtpA from E. coli in Complex with Valganciclovir Provides Insights into Drug Binding of Human PepT1

Auteurs: Yonca Ural-Blimke, Ali Flayhan, Jan Strauss, Vasileios Rantos, Kim Bartels, Rolf Nielsen, Els Pardon, Jan Steyaert, Jan Kosinski, Esben M. Quistgaard, Christian Löw
Publié dans: Journal of the American Chemical Society, Numéro 141/6, 2019, Page(s) 2404-2412, ISSN 0002-7863
Éditeur: American Chemical Society
DOI: 10.1021/jacs.8b11343

Design, Synthesis and Biological Evaluation of Isoxazole-Based CK1 Inhibitors Modified with Chiral Pyrrolidine Scaffolds

Auteurs: Andreas Luxenburger, Dorian Schmidt, Chiara Ianes, Christian Pichlo, Marc Krüger, Thorsten von Drathen, Elena Brunstein, Graeme Gainsford, Ulrich Baumann, Uwe Knippschild, Christian Peifer
Publié dans: Molecules, Numéro 24/5, 2019, Page(s) 873, ISSN 1420-3049
Éditeur: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/molecules24050873

A post-translational modification of human Norovirus capsid protein attenuates glycan binding

Auteurs: Alvaro Mallagaray, Robert Creutznacher, Jasmin Dülfer, Philipp H. O. Mayer, Lena Lisbeth Grimm, Jose Maria Orduña, Esben Trabjerg, Thilo Stehle, Kasper D. Rand, Bärbel S. Blaum, Charlotte Uetrecht, Thomas Peters
Publié dans: Nature Communications, Numéro 10/1, 2019, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-019-09251-5

Impact of lipid binding on the tertiary structure and allergenic potential of Jug r 3, the non-specific lipid transfer protein from walnut

Auteurs: Pawel Dubiela, Rebecca Del Conte, Francesca Cantini, Tomasz Borowski, Roberta Aina, Christian Radauer, Merima Bublin, Karin Hoffmann-Sommergruber, Stefano Alessandri
Publié dans: Scientific Reports, Numéro 9/1, 2019, ISSN 2045-2322
Éditeur: Nature Publishing Group
DOI: 10.1038/s41598-019-38563-1

A framework for tracer-based metabolism in mammalian cells by NMR

Auteurs: Raquel Saborano, Zuhal Eraslan, Jennie Roberts, Farhat L. Khanim, Patricia F. Lalor, Michelle A. C. Reed, Ulrich L. Günther
Publié dans: Scientific Reports, Numéro 9/1, 2019, ISSN 2045-2322
Éditeur: Nature Publishing Group
DOI: 10.1038/s41598-018-37525-3

Building and rebuilding N-glycans in protein structure models

Auteurs: Bart van Beusekom, Natasja Wezel, Maarten L. Hekkelman, Anastassis Perrakis, Paul Emsley, Robbie P. Joosten
Publié dans: Acta Crystallographica Section D Structural Biology, Numéro 75/4, 2019, Page(s) 416-425, ISSN 2059-7983
Éditeur: -
DOI: 10.1107/s2059798319003875

Structural basis for assembly of vertical single β-barrel viruses

Auteurs: Isaac Santos-Pérez, Diego Charro, David Gil-Carton, Mikel Azkargorta, Felix Elortza, Dennis H. Bamford, Hanna M. Oksanen, Nicola G. A. Abrescia
Publié dans: Nature Communications, Numéro 10/1, 2019, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/s41467-019-08927-2

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

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

Cadmium effects on superoxide dismutase 1 in human cells revealed by NMR

Auteurs: Panagis Polykretis, Francesca Cencetti, Chiara Donati, Enrico Luchinat, Lucia Banci
Publié dans: Redox Biology, Numéro 21, 2019, Page(s) 101102, ISSN 2213-2317
Éditeur: Elsevier BV
DOI: 10.1016/j.redox.2019.101102

A 2.8-Angstrom-Resolution Cryo-Electron Microscopy Structure of Human Parechovirus 3 in Complex with Fab from a Neutralizing Antibody

Auteurs: Aušra Domanska, Justin W. Flatt, Joonas J. J. Jukonen, James A. Geraets, Sarah J. Butcher
Publié dans: Journal of Virology, Numéro 93/4, 2019, ISSN 0022-538X
Éditeur: American Society for Microbiology
DOI: 10.1128/jvi.01597-18

Regulation of Human Hsc70 ATPase and Chaperone Activities by Apg2: Role of the Acidic Subdomain

Auteurs: Yovana Cabrera, Leire Dublang, José Angel Fernández-Higuero, David Albesa-Jové, Maria Lucas, Ana Rosa Viguera, Marcelo E. Guerin, Jose M.G. Vilar, Arturo Muga, Fernando Moro
Publié dans: Journal of Molecular Biology, Numéro 431/2, 2019, Page(s) 444-461, ISSN 0022-2836
Éditeur: Academic Press
DOI: 10.1016/j.jmb.2018.11.026

Utilization of Staphylococcal Immune Evasion Protein Sbi as a Novel Vaccine Adjuvant

Auteurs: Yi Yang, Catherine R. Back, Melissa A. Gräwert, Ayla A. Wahid, Harriet Denton, Rebecca Kildani, Joshua Paulin, Kristin Wörner, Wolgang Kaiser, Dmitri I. Svergun, Asel Sartbaeva, Andrew G. Watts, Kevin J. Marchbank, Jean M. H. van den Elsen
Publié dans: Frontiers in Immunology, Numéro 9, 2019, ISSN 1664-3224
Éditeur: -
DOI: 10.3389/fimmu.2018.03139

Survey of the analysis of continuous conformational variability of biological macromolecules by electron microscopy

Auteurs: C. O. S. Sorzano, A. Jiménez, J. Mota, J. L. Vilas, D. Maluenda, M. Martínez, E. Ramírez-Aportela, T. Majtner, J. Segura, R. Sánchez-García, Y. Rancel, L. del Caño, P. Conesa, R. Melero, S. Jonic, J. Vargas, F. Cazals, Z. Freyberg, J. Krieger, I. Bahar, R. Marabini, J. M. Carazo
Publié dans: Acta Crystallographica Section F Structural Biology Communications, Numéro 75/1, 2019, Page(s) 19-32, ISSN 2053-230X
Éditeur: John Wiley and Sons Ltd
DOI: 10.1107/s2053230x18015108

Metal cofactors trafficking and assembly in the cell: a molecular view

Auteurs: Francesca Camponeschi, Lucia Banci
Publié dans: Pure and Applied Chemistry, Numéro 91/2, 2019, Page(s) 231-245, ISSN 0033-4545
Éditeur: International Union of Pure and Applied Chemistry
DOI: 10.1515/pac-2018-0720

Conformational switch in the ribosomal protein S1 guides unfolding of structured RNAs for translation initiation

Auteurs: Nusrat Shahin Qureshi, Jasleen Kaur Bains, Sridhar Sreeramulu, Harald Schwalbe, Boris Fürtig
Publié dans: Nucleic Acids Research, 2018, ISSN 0305-1048
Éditeur: Oxford University Press
DOI: 10.1093/nar/gky746

Correlative cryo super-resolution light and electron microscopy on mammalian cells using fluorescent proteins

Auteurs: Maarten W. Tuijtel, Abraham J. Koster, Stefan Jakobs, Frank G. A. Faas, Thomas H. Sharp
Publié dans: Scientific Reports, Numéro 9/1, 2019, ISSN 2045-2322
Éditeur: Nature Publishing Group
DOI: 10.1038/s41598-018-37728-8

GM130 and p115 play a key role in the organisation of the early secretory pathway during skeletal muscle differentiation

Auteurs: Emiliana Giacomello, Paolo Ronchi, Rainer Pepperkok
Publié dans: Journal of Cell Science, Numéro 132/2, 2019, Page(s) jcs222083, ISSN 0021-9533
Éditeur: The Company of Biologists Ltd.
DOI: 10.1242/jcs.222083

Shedding Light on the Interaction of Human Anti-Apoptotic Bcl-2 Protein with Ligands through Biophysical and in Silico Studies

Auteurs: Joao Ramos, Jayaraman Muthukumaran, Filipe Freire, João Paquete-Ferreira, Ana Otrelo-Cardoso, Dmitri Svergun, Alejandro Panjkovich, Teresa Santos-Silva
Publié dans: International Journal of Molecular Sciences, Numéro 20/4, 2019, Page(s) 860, ISSN 1422-0067
Éditeur: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/ijms20040860

NMR Characterization of Long‐Range Contacts in Intrinsically Disordered Proteins from Paramagnetic Relaxation Enhancement in 13 C Direct‐Detection Experiments

Auteurs: Borja Mateos, Robert Konrat, Roberta Pierattelli, Isabella C. Felli
Publié dans: ChemBioChem, Numéro 20/3, 2018, Page(s) 335-339, ISSN 1439-4227
Éditeur: John Wiley & Sons Ltd.
DOI: 10.1002/cbic.201800539

3DBIONOTES v3.0: crossing molecular and structural biology data with genomic variations

Auteurs: Joan Segura, Ruben Sanchez-Garcia, C O S Sorzano, J M Carazo
Publié dans: Bioinformatics, Numéro 35/18, 2019, Page(s) 3512-3513, ISSN 1367-4803
Éditeur: Oxford University Press
DOI: 10.1093/bioinformatics/btz118

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

Auteurs: Erney Ramírez-Aportela, Javier Mota, Pablo Conesa, Jose Maria Carazo, Carlos Oscar S. Sorzano
Publié dans: IUCrJ, Numéro 6/6, 2019, ISSN 2052-2525
Éditeur: -
DOI: 10.1107/s2052252519011692

Automatic local resolution-based sharpening of cryo-EM maps

Auteurs: Erney Ramírez-Aportela, Jose Luis Vilas, Alisa Glukhova, Roberto Melero, Pablo Conesa, Marta Martínez, David Maluenda, Javier Mota, Amaya Jiménez, Javier Vargas, Roberto Marabini, Patrick M Sexton, Jose Maria Carazo, Carlos Oscar S Sorzano
Publié dans: Bioinformatics, 2019, ISSN 1367-4803
Éditeur: Oxford University Press
DOI: 10.1093/bioinformatics/btz671

Advances in image processing for single-particle analysis by electron cryomicroscopy and challenges ahead

Auteurs: J.L. Vilas, N. Tabassum, J. Mota, D. Maluenda, A. Jiménez-Moreno, T. Majtner, J.M. Carazo, S.T. Acton, C.O.S. Sorzano
Publié dans: Current Opinion in Structural Biology, Numéro 52, 2018, Page(s) 127-145, ISSN 0959-440X
Éditeur: Elsevier BV
DOI: 10.1016/j.sbi.2018.11.004

Correction: Structural plasticity of the N-terminal capping helix of the TPR domain of kinesin light chain

Auteurs: The Quyen Nguyen, Mélanie Chenon, Fernando Vilela, Christophe Velours, Magali Aumont-Nicaise, Jessica Andreani, Paloma F. Varela, Paola Llinas, Julie Ménétrey
Publié dans: PLOS ONE, Numéro 13/5, 2018, Page(s) e0197193, ISSN 1932-6203
Éditeur: Public Library of Science
DOI: 10.1371/journal.pone.0197193

Advances in cryo-electron tomography for biology and medicine

Auteurs: Roman I. Koning, Abraham J. Koster, Thomas H. Sharp
Publié dans: Annals of Anatomy - Anatomischer Anzeiger, Numéro 217, 2018, Page(s) 82-96, ISSN 0940-9602
Éditeur: Elsevier BV
DOI: 10.1016/j.aanat.2018.02.004

NMR Study of Rcf2 Reveals an Unusual Dimeric Topology in Detergent Micelles

Auteurs: Shu Zhou, Pontus Pettersson, Peter Brzezinski, Pia Ädelroth, Lena Mäler
Publié dans: ChemBioChem, Numéro 19/5, 2018, Page(s) 444-447, ISSN 1439-4227
Éditeur: John Wiley & Sons Ltd.
DOI: 10.1002/cbic.201700664

XTEND: Extending the depth of field in cryo soft X-ray tomography

Auteurs: Joaquín Otón, Eva Pereiro, José J. Conesa, Francisco J. Chichón, Daniel Luque, Javier M. Rodríguez, Ana J. Pérez-Berná, Carlos Oscar S. Sorzano, Joanna Klukowska, Gabor T. Herman, Javier Vargas, Roberto Marabini, José L. Carrascosa, José M. Carazo
Publié dans: Scientific Reports, Numéro 7, 2017, Page(s) 45808, ISSN 2045-2322
Éditeur: Nature Publishing Group
DOI: 10.1038/srep45808

Solution NMR Structure of a Ligand/Hybrid-2-G-Quadruplex Complex Reveals Rearrangements that Affect Ligand Binding

Auteurs: Julia Wirmer-Bartoschek, Lars Erik Bendel, Hendrik R. A. Jonker, J. Tassilo Grün, Francesco Papi, Carla Bazzicalupi, Luigi Messori, Paola Gratteri, Harald Schwalbe
Publié dans: Angewandte Chemie International Edition, 2017, ISSN 1433-7851
Éditeur: John Wiley & Sons Ltd.
DOI: 10.1002/anie.201702135

ATSAS 2.8 : a comprehensive data analysis suite for small-angle scattering from macromolecular solutions

Auteurs: D. Franke, M. V. Petoukhov, P. V. Konarev, A. Panjkovich, A. Tuukkanen, H. D. T. Mertens, A. G. Kikhney, N. R. Hajizadeh, J. M. Franklin, C. M. Jeffries, D. I. Svergun
Publié dans: Journal of Applied Crystallography, Numéro 50/4, 2017, ISSN 1600-5767
Éditeur: IUCr/Wiley
DOI: 10.1107/S1600576717007786

Crabrolin, a natural antimicrobial peptide: structural properties

Auteurs: Massimiliano Aschi, Argante Bozzi, Carla Luzi, Nadia Bouchemal, Marco Sette
Publié dans: Journal of Peptide Science, Numéro June 5, 2017, ISSN 1075-2617
Éditeur: John Wiley & Sons Inc.
DOI: 10.1002/psc.3013

Mistakes in translation: Reflections on mechanism

Auteurs: Yizhou Liu, Joshua S. Sharp, Duc H-T. Do, Richard A. Kahn, Harald Schwalbe, Florian Buhr, James H. Prestegard
Publié dans: PLOS ONE, Numéro 12/6, 2017, Page(s) e0180566, ISSN 1932-6203
Éditeur: Public Library of Science
DOI: 10.1371/journal.pone.0180566

Structural insights into the molecular function of human [2Fe-2S] BOLA1-GRX5 and [2Fe-2S] BOLA3-GRX5 complexes

Auteurs: Veronica Nasta, Andrea Giachetti, Simone Ciofi-Baffoni, Lucia Banci
Publié dans: Biochimica et Biophysica Acta (BBA) - General Subjects, Numéro 1861/8, 2017, Page(s) 2119-2131, ISSN 0304-4165
Éditeur: Elsevier BV
DOI: 10.1016/j.bbagen.2017.05.005

A Spring-Loaded Mechanism Governs the Clamp-like Dynamics of the Skp Chaperone

Auteurs: Daniel A. Holdbrook, Björn M. Burmann, Roland G. Huber, Maxim V. Petoukhov, Dmitri I. Svergun, Sebastian Hiller, Peter J. Bond
Publié dans: Structure, Numéro 25/7, 2017, Page(s) 1079-1088.e3, ISSN 0969-2126
Éditeur: Cell Press
DOI: 10.1016/j.str.2017.05.018

Paramagnetic Properties of a Crystalline Iron–Sulfur Protein by Magic-Angle Spinning NMR Spectroscopy

Auteurs: Andrea Bertarello, Tobias Schubeis, Carmelo Fuccio, Enrico Ravera, Marco Fragai, Giacomo Parigi, Lyndon Emsley, Guido Pintacuda, Claudio Luchinat
Publié dans: Inorganic Chemistry, Numéro 56/11, 2017, Page(s) 6624-6629, ISSN 0020-1669
Éditeur: American Chemical Society
DOI: 10.1021/acs.inorgchem.7b00674

Combining NMR and small angle X-ray scattering for the study of biomolecular structure and dynamics

Auteurs: Haydyn D.T. Mertens, Dmitri I. Svergun
Publié dans: Archives of Biochemistry and Biophysics, Numéro 628, 2017, Page(s) 33-41, ISSN 0003-9861
Éditeur: Academic Press
DOI: 10.1016/j.abb.2017.05.005

Anthranilate phosphoribosyltransferase from the hyperthermophilic archaeon Thermococcus kodakarensis shows maximum activity with zinc and forms a unique dimeric structure

Auteurs: Sumera Perveen, Naeem Rashid, Xiao-Feng Tang, Tadayuki Imanaka, Anastassios C. Papageorgiou
Publié dans: FEBS Open Bio, Numéro 7/8, 2017, Page(s) 1217-1230, ISSN 2211-5463
Éditeur: Elsevier BV
DOI: 10.1002/2211-5463.12264

A Novel Approach to Data Collection for Difficult Structures: Data Management for Large Numbers of Crystals with the BLEND Software

Auteurs: Anastasia Mylona, Stephen Carr, Pierre Aller, Isabel Moraes, Richard Treisman, Gwyndaf Evans, James Foadi
Publié dans: Crystals, Numéro 7/8, 2017, Page(s) 242, ISSN 2073-4352
Éditeur: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/cryst7080242

Anamorsin/Ndor1 Complex Reduces [2Fe–2S]-MitoNEET via a Transient Protein–Protein Interaction

Auteurs: Francesca Camponeschi, Simone Ciofi-Baffoni, Lucia Banci
Publié dans: Journal of the American Chemical Society, Numéro 139/28, 2017, Page(s) 9479-9482, ISSN 0002-7863
Éditeur: American Chemical Society
DOI: 10.1021/jacs.7b05003

An antimicrobial peptide that inhibits translation by trapping release factors on the ribosome

Auteurs: Tanja Florin, Cristina Maracci, Michael Graf, Prajwal Karki, Dorota Klepacki, Otto Berninghausen, Roland Beckmann, Nora Vázquez-Laslop, Daniel N Wilson, Marina V Rodnina, Alexander S Mankin
Publié dans: Nature Structural & Molecular Biology, Numéro 24/9, 2017, Page(s) 752-757, ISSN 1545-9993
Éditeur: Nature Publishing Group
DOI: 10.1038/nsmb.3439

Lipid-like Peptides can Stabilize Integral Membrane Proteins for Biophysical and Structural Studies

Auteurs: Katharina Veith, Maria Martinez Molledo, Yasser Almeida Hernandez, Inokentijs Josts, Julius Nitsche, Christian Löw, Henning Tidow
Publié dans: ChemBioChem, Numéro 18/17, 2017, Page(s) 1735-1742, ISSN 1439-4227
Éditeur: John Wiley & Sons Ltd.
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Evaluation of 15N-detected H–N correlation experiments on increasingly large RNAs

Auteurs: Robbin Schnieders, Christian Richter, Sven Warhaut, Vanessa de Jesus, Sara Keyhani, Elke Duchardt-Ferner, Heiko Keller, Jens Wöhnert, Lars T. Kuhn, Alexander L. Breeze, Wolfgang Bermel, Harald Schwalbe, Boris Fürtig
Publié dans: Journal of Biomolecular NMR, Numéro 69/1, 2017, Page(s) 31-44, ISSN 0925-2738
Éditeur: Kluwer Academic Publishers
DOI: 10.1007/s10858-017-0132-7

An effective introduction to structural crystallography using 1D Gaussian atoms

Auteurs: Emily Smith, Gwyndaf Evans, James Foadi
Publié dans: European Journal of Physics, Numéro 38/6, 2017, Page(s) 065501, ISSN 0143-0807
Éditeur: Institute of Physics Publishing
DOI: 10.1088/1361-6404/aa8188

Saposin-Lipoprotein Scaffolds for Structure Determination of Membrane Transporters

Auteurs: Joseph A. Lyons, Andreas Bøggild, Poul Nissen, Jens Frauenfeld
Publié dans: Methods in Enzymology, Numéro 19/07/2017, 2017, Page(s) 85-99
Éditeur: Elsevier
DOI: 10.1016/bs.mie.2017.06.035

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