Literature DB >> 21945315

The catalytic domain of MMP-1 studied through tagged lanthanides.

Ivano Bertini1, Vito Calderone, Linda Cerofolini, Marco Fragai, Carlos F G C Geraldes, Petr Hermann, Claudio Luchinat, Giacomo Parigi, João M C Teixeira.   

Abstract

Pseudocontact shifts (pcs) and paramagnetic residual dipolar couplings (rdc) provide structural information that can be used to assess the adequacy of a crystallographic structure to represent the solution structure of a protein. This can be done by attaching a lanthanide binding tag to the protein. There are cases in which only local rearrangements are sufficient to match the NMR data and cases where significant secondary structure or domain rearrangements from the solid state to the solution state are needed. We show that the two cases are easily distinguishable. Whereas the use of solution restraints in the latter case is described in the literature, here we deal with how to obtain a better model of the solution structure in a case (the catalytic domain of the matrix metalloproteinase MMP-1) of the former class. Copyright Â
© 2011 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.

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Year:  2011        PMID: 21945315     DOI: 10.1016/j.febslet.2011.09.020

Source DB:  PubMed          Journal:  FEBS Lett        ISSN: 0014-5793            Impact factor:   4.124


  16 in total

1.  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

2.  Information content of long-range NMR data for the characterization of conformational heterogeneity.

Authors:  Witold Andrałojć; Konstantin Berlin; David Fushman; Claudio Luchinat; Giacomo Parigi; Enrico Ravera; Luca Sgheri
Journal:  J Biomol NMR       Date:  2015-06-05       Impact factor: 2.835

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

Authors:  Mauro Rinaldelli; Azzurra Carlon; Enrico Ravera; Giacomo Parigi; Claudio Luchinat
Journal:  J Biomol NMR       Date:  2014-11-22       Impact factor: 2.835

4.  A minor conformation of a lanthanide tag on adenylate kinase characterized by paramagnetic relaxation dispersion NMR spectroscopy.

Authors:  Mathias A S Hass; Wei-Min Liu; Roman V Agafonov; Renee Otten; Lien A Phung; Jesika T Schilder; Dorothee Kern; Marcellus Ubbink
Journal:  J Biomol NMR       Date:  2015-01-08       Impact factor: 2.835

5.  Crystallization and preliminary X-ray crystallographic analysis of the catalytic domain of membrane type 1 matrix metalloproteinase.

Authors:  Hideaki Ogata; Elena Decaneto; Moran Grossman; Martina Havenith; Irit Sagi; Wolfgang Lubitz; Markus Knipp
Journal:  Acta Crystallogr F Struct Biol Commun       Date:  2014-01-22       Impact factor: 1.056

6.  Real-time tracking of single-molecule collagenase on native collagen and partially structured collagen-mimic substrates.

Authors:  James Froberg; Woo-Sik Choi; Abbas Sedigh; Tayebeh Anajafi; Jasmin Farmakes; Zhongyu Yang; Sanku Mallik; D K Srivastava; Yongki Choi
Journal:  Chem Commun (Camb)       Date:  2018-09-11       Impact factor: 6.222

Review 7.  Paramagnetic Chemical Probes for Studying Biological Macromolecules.

Authors:  Qing Miao; Christoph Nitsche; Henry Orton; Mark Overhand; Gottfried Otting; Marcellus Ubbink
Journal:  Chem Rev       Date:  2022-01-27       Impact factor: 72.087

8.  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

Review 9.  Insights into domain-domain motions in proteins and RNA from solution NMR.

Authors:  Enrico Ravera; Loïc Salmon; Marco Fragai; Giacomo Parigi; Hashim Al-Hashimi; Claudio Luchinat
Journal:  Acc Chem Res       Date:  2014-08-22       Impact factor: 22.384

10.  Simultaneous use of solution NMR and X-ray data in REFMAC5 for joint refinement/detection of structural differences.

Authors:  Mauro Rinaldelli; Enrico Ravera; Vito Calderone; Giacomo Parigi; Garib N Murshudov; Claudio Luchinat
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2014-03-19
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