Literature DB >> 25416616

FANTEN: a new web-based interface for the analysis of magnetic anisotropy-induced NMR data.

Mauro Rinaldelli1, Azzurra Carlon, Enrico Ravera, Giacomo Parigi, Claudio Luchinat.   

Abstract

Pseudocontact shifts (PCSs) and residual dipolar couplings (RDCs) arising from the presence of paramagnetic metal ions in proteins as well as RDCs due to partial orientation induced by external orienting media are nowadays routinely measured as a part of the NMR characterization of biologically relevant systems. PCSs and RDCs are becoming more and more popular as restraints (1) to determine and/or refine protein structures in solution, (2) to monitor the extent of conformational heterogeneity in systems composed of rigid domains which can reorient with respect to one another, and (3) to obtain structural information in protein-protein complexes. The use of both PCSs and RDCs proceeds through the determination of the anisotropy tensors which are at the origin of these NMR observables. A new user-friendly web tool, called FANTEN (Finding ANisotropy TENsors), has been developed for the determination of the anisotropy tensors related to PCSs and RDCs and has been made freely available through the WeNMR ( http://fanten-enmr.cerm.unifi.it:8080 ) gateway. The program has many new features not available in other existing programs, among which the possibility of a joint analysis of several sets of PCS and RDC data and the possibility to perform rigid body minimizations.

Entities:  

Mesh:

Year:  2014        PMID: 25416616     DOI: 10.1007/s10858-014-9877-4

Source DB:  PubMed          Journal:  J Biomol NMR        ISSN: 0925-2738            Impact factor:   2.835


  81 in total

1.  The Xplor-NIH NMR molecular structure determination package.

Authors:  Charles D Schwieters; John J Kuszewski; Nico Tjandra; G Marius Clore
Journal:  J Magn Reson       Date:  2003-01       Impact factor: 2.229

2.  MaxOcc: a web portal for maximum occurrence analysis.

Authors:  Ivano Bertini; Lucio Ferella; Claudio Luchinat; Giacomo Parigi; Maxim V Petoukhov; Enrico Ravera; Antonio Rosato; Dmitri I Svergun
Journal:  J Biomol NMR       Date:  2012-05-26       Impact factor: 2.835

3.  Conformational space of flexible biological macromolecules from average data.

Authors:  Ivano Bertini; Andrea Giachetti; Claudio Luchinat; Giacomo Parigi; Maxim V Petoukhov; Roberta Pierattelli; Enrico Ravera; Dmitri I Svergun
Journal:  J Am Chem Soc       Date:  2010-09-29       Impact factor: 15.419

4.  Validation of a lanthanide tag for the analysis of protein dynamics by paramagnetic NMR spectroscopy.

Authors:  Mathias A S Hass; Peter H J Keizers; Anneloes Blok; Yoshitaka Hiruma; Marcellus Ubbink
Journal:  J Am Chem Soc       Date:  2010-07-28       Impact factor: 15.419

5.  Examination of matrix metalloproteinase-1 in solution: a preference for the pre-collagenolysis state.

Authors:  Linda Cerofolini; Gregg B Fields; Marco Fragai; Carlos F G C Geraldes; Claudio Luchinat; Giacomo Parigi; Enrico Ravera; Dmitri I Svergun; João M C Teixeira
Journal:  J Biol Chem       Date:  2013-09-11       Impact factor: 5.157

Review 6.  Paramagnetic tagging of diamagnetic proteins for solution NMR.

Authors:  Fernando Rodriguez-Castañeda; Peter Haberz; Andrei Leonov; Christian Griesinger
Journal:  Magn Reson Chem       Date:  2006-07       Impact factor: 2.447

7.  Local and global structure of the monomeric subunit of the potassium channel KcsA probed by NMR.

Authors:  Jordan H Chill; John M Louis; Frank Delaglio; Ad Bax
Journal:  Biochim Biophys Acta       Date:  2007-08-24

8.  PARAssign--paramagnetic NMR assignments of protein nuclei on the basis of pseudocontact shifts.

Authors:  Simon P Skinner; Mois Moshev; Mathias A S Hass; Peter H J Keizers; Marcellus Ubbink
Journal:  J Biomol NMR       Date:  2013-03-23       Impact factor: 2.835

9.  An NMR strategy for fragment-based ligand screening utilizing a paramagnetic lanthanide probe.

Authors:  Tomohide Saio; Kenji Ogura; Kazumi Shimizu; Masashi Yokochi; Terrence R Burke; Fuyuhiko Inagaki
Journal:  J Biomol NMR       Date:  2011-09-17       Impact factor: 2.835

10.  Direct and selective tagging of cysteine residues in peptides and proteins with 4-nitropyridyl lanthanide complexes.

Authors:  Kathryn L Gempf; Stephen J Butler; Alexander M Funk; David Parker
Journal:  Chem Commun (Camb)       Date:  2013-08-29       Impact factor: 6.222

View more
  9 in total

1.  A protocol for the refinement of NMR structures using simultaneously pseudocontact shift restraints from multiple lanthanide ions.

Authors:  Davide Sala; Andrea Giachetti; Claudio Luchinat; Antonio Rosato
Journal:  J Biomol NMR       Date:  2016-10-22       Impact factor: 2.835

2.  Assessing Structural Preferences of Unstructured Protein Regions by NMR.

Authors:  Azzurra Carlon; Lucia Gigli; Enrico Ravera; Giacomo Parigi; Angela M Gronenborn; Claudio Luchinat
Journal:  Biophys J       Date:  2019-10-14       Impact factor: 4.033

Review 3.  Characterizing conformational ensembles of multi-domain proteins using anisotropic paramagnetic NMR restraints.

Authors:  Xue-Ni Hou; Hidehito Tochio
Journal:  Biophys Rev       Date:  2022-01-11

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

Authors:  Linda Cerofolini; Tommaso Staderini; Stefano Giuntini; Enrico Ravera; Marco Fragai; Giacomo Parigi; Roberta Pierattelli; Claudio Luchinat
Journal:  J Biol Inorg Chem       Date:  2017-12-07       Impact factor: 3.358

5.  Site-specific tagging proteins with a rigid, small and stable transition metal chelator, 8-hydroxyquinoline, for paramagnetic NMR analysis.

Authors:  Yin Yang; Feng Huang; Thomas Huber; Xun-Cheng Su
Journal:  J Biomol NMR       Date:  2016-01-06       Impact factor: 2.835

Review 6.  Paramagnetic NMR in drug discovery.

Authors:  Charlotte A Softley; Mark J Bostock; Grzegorz M Popowicz; Michael Sattler
Journal:  J Biomol NMR       Date:  2020-06-10       Impact factor: 2.835

7.  On the complementarity of X-ray and NMR data.

Authors:  Antonio Schirò; Azzurra Carlon; Giacomo Parigi; Garib Murshudov; Vito Calderone; Enrico Ravera; Claudio Luchinat
Journal:  J Struct Biol X       Date:  2020-01-07

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

Authors:  Linda Cerofolini; Stefano Giuntini; Letizia Barbieri; Matteo Pennestri; Anna Codina; Marco Fragai; Lucia Banci; Enrico Luchinat; Enrico Ravera
Journal:  Biophys J       Date:  2018-12-06       Impact factor: 4.033

9.  The Photocatalyzed Thiol-ene reaction: A New Tag to Yield Fast, Selective and reversible Paramagnetic Tagging of Proteins.

Authors:  Maxime Denis; Charlotte Softley; Stefano Giuntini; Matteo Gentili; Enrico Ravera; Giacomo Parigi; Marco Fragai; Grzegorz Popowicz; Michael Sattler; Claudio Luchinat; Linda Cerofolini; Cristina Nativi
Journal:  Chemphyschem       Date:  2020-03-19       Impact factor: 3.102

  9 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.