Literature DB >> 11097821

SIMPSON: a general simulation program for solid-state NMR spectroscopy.

M Bak1, J T Rasmussen, N C Nielsen.   

Abstract

A computer program for fast and accurate numerical simulation of solid-state NMR experiments is described. The program is designed to emulate a NMR spectrometer by letting the user specify high-level NMR concepts such as spin systems, nuclear spin interactions, RF irradiation, free precession, phase cycling, coherence-order filtering, and implicit/explicit acquisition. These elements are implemented using the Tcl scripting language to ensure a minimum of programming overhead and direct interpretation without the need for compilation, while maintaining the flexibility of a full-featured programming language. Basically, there are no intrinsic limitations to the number of spins, types of interactions, sample conditions (static or spinning, powders, uniaxially oriented molecules, single crystals, or solutions), and the complexity or number of spectral dimensions for the pulse sequence. The applicability ranges from simple 1D experiments to advanced multiple-pulse and multiple-dimensional experiments, series of simulations, parameter scans, complex data manipulation/visualization, and iterative fitting of simulated to experimental spectra. A major effort has been devoted to optimizing the computation speed using state-of-the-art algorithms for the time-consuming parts of the calculations implemented in the core of the program using the C programming language. Modification and maintenance of the program are facilitated by releasing the program as open source software (General Public License) currently at http://nmr.imsb.au.dk. The general features of the program are demonstrated by numerical simulations of various aspects for REDOR, rotational resonance, DRAMA, DRAWS, HORROR, C7, TEDOR, POST-C7, CW decoupling, TPPM, F-SLG, SLF, SEMA-CP, PISEMA, RFDR, QCPMG-MAS, and MQ-MAS experiments. Copyright 2000 Academic Press.

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Year:  2000        PMID: 11097821     DOI: 10.1006/jmre.2000.2179

Source DB:  PubMed          Journal:  J Magn Reson        ISSN: 1090-7807            Impact factor:   2.229


  201 in total

1.  Solid-state NMR spectroscopy of protein complexes.

Authors:  Shangjin Sun; Yun Han; Sivakumar Paramasivam; Si Yan; Amanda E Siglin; John C Williams; In-Ja L Byeon; Jinwoo Ahn; Angela M Gronenborn; Tatyana Polenova
Journal:  Methods Mol Biol       Date:  2012

2.  Broadband RFDR with adiabatic inversion pulses.

Authors:  Jörg Leppert; Bert Heise; Oliver Ohlenschläger; Matthias Görlach; Ramadurai Ramachandran
Journal:  J Biomol NMR       Date:  2003-05       Impact factor: 2.835

3.  RFDR with adiabatic inversion pulses: application to internuclear distance measurements.

Authors:  Jörg Leppert; Oliver Ohlenschläger; Matthias Görlach; Ramadurai Ramachandran
Journal:  J Biomol NMR       Date:  2004-03       Impact factor: 2.835

4.  Determination of DNA minor groove width in distamycin-DNA complexes by solid-state NMR.

Authors:  Greg L Olsen; Elizabeth A Louie; Gary P Drobny; Snorri Th Sigurdsson
Journal:  Nucleic Acids Res       Date:  2003-09-01       Impact factor: 16.971

5.  Adiabatic heteronuclear decoupling in rotating solids.

Authors:  Jörg Leppert; Oliver Ohlenschläger; Matthias Görlach; Ramadurai Ramachandran
Journal:  J Biomol NMR       Date:  2004-07       Impact factor: 2.835

Review 6.  Structure determination of membrane proteins by NMR spectroscopy.

Authors:  Stanley J Opella; Francesca M Marassi
Journal:  Chem Rev       Date:  2004-08       Impact factor: 60.622

7.  Adiabatic TOBSY in rotating solids.

Authors:  Jörg Leppert; Oliver Ohlenschläger; Matthias Görlach; Ramadurai Ramachandran
Journal:  J Biomol NMR       Date:  2004-06       Impact factor: 2.835

8.  Interactions of protein side chains with RNA defined with REDOR solid state NMR.

Authors:  Wei Huang; Gabriele Varani; Gary P Drobny
Journal:  J Biomol NMR       Date:  2011-09-25       Impact factor: 2.835

9.  Recoupling of chemical shift anisotropy by R-symmetry sequences in magic angle spinning NMR spectroscopy.

Authors:  Guangjin Hou; In-Ja L Byeon; Jinwoo Ahn; Angela M Gronenborn; Tatyana Polenova
Journal:  J Chem Phys       Date:  2012-10-07       Impact factor: 3.488

10.  Detection of closed influenza virus hemagglutinin fusion peptide structures in membranes by backbone (13)CO- (15)N rotational-echo double-resonance solid-state NMR.

Authors:  Ujjayini Ghosh; Li Xie; David P Weliky
Journal:  J Biomol NMR       Date:  2013-01-18       Impact factor: 2.835

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