Solid state nmr simulation software

The liquid state nmr services at the university of oslo. It is a simulation package initially developed at thedepartment of chemistry p. The simulation software is used both to interpete the signal obtained by the use of a pulse sequence and to set up new. Most recent update of these pages february 15, 2011. Spinevolution is a highly efficient computer program for the numerical simulation of nmr experiments and general spin dynamics. Molecular architecture of softwood revealed by solidstate nmr. This book focuses on the latest developments and applications for solidstate nmr, which has found new uses from archaeology to crystallography to biomaterials and pharmaceutical. Wsolids1 should also run under linux using wine or under mac os, also using wine.

The program is designed to emulate a nmr spectrometer by letting the user specify highlevel nmr concepts such as spin systems, nuclear spin interactions, rf irradiation, free precession, phase cycling, coherenceorder filtering, and. A 32 bit program that runs under ms windows xp and above to simulate solid state nmr spectra it does not iterate. It is popular in the nmr of solids and almost ignored in liquid nmr. A computer program for fast and accurate numerical simulation of solidstate nmr experiments is described. The program is designed to emulate a nmr spectrometer by letting the user specify highlevel nmr concepts such as spin systems, nuclear spin interactions, rf irradiation, free precession, phase cycling, coherenceorder filtering, and implicitexplicit. Features and functionality nmr simulation software. A 32 bit program that runs under ms windows xp and above to simulate solidstate nmr spectra it does not iterate. Simmol is an helper software that allow to describe the spin system and calculate all needed parameters. In this paper we present a general simulation program for solid state nmr spectroscopy simpson which is designed to work as a computer spectrometer. In solidstate nmr spectroscopy, motions on a broader timescale from the nano to the mill.

This book focuses on the latest developments and applications for solid state nmr, which has found new uses from archaeology to crystallography to biomaterials and pharmaceutical. Autoassign is an artificial intelligence package for automating the analysis of backbone resonance assignments using tripleresonance nmr spectra of proteins. If any special hardware or software knowledge is required, it is indicated within the experimental section. The journal solid state nuclear magnetic resonance publishes original manuscripts of high scientific quality dealing with all experimental and theoretical aspects of solid state nmr. Introduction to solid state nmr in solution nmr, spectra consist of a series of very sharp transitions, due to averaging of anisotropic nmr interactions by rapid random tumbling. This includes advances in instrumentation, development of new experimental techniques and methodology, new theoretical insights, new data processing and simulation. Solid state nmr contract analytical testing services. Wsolids1 is a program for the visualization and analysis of processed onedimensional solidstate nmr data.

As in liquid nmr, each type of solidstate nmr experiment uses one or more characteristic pulse sequences to probe specific information. Introduction to solid state nmr spectroscopy is written for undergraduate and graduate students of chemistry, either taking a course in advanced or solidstate nuclear magnetic resonance spectroscopy or undertaking research projects where solidstate nmr is likely to be a major investigative technique. Introduction to solid state nmr spectroscopy is written for undergraduate and graduate students of chemistry, either taking a course in advanced or solid state nuclear magnetic resonance spectroscopy or undertaking research projects where solid state nmr is likely to be a major investigative technique. This section provides links to various nmr related software packages that you might find useful. Solid state nuclear magnetic resonance journal elsevier. Useful nmr resources the nmr facility staff has compiled a list of very useful nmr related resources to aid the user in proper data collection, analysis and understanding.

Ucladoe software and servers for biomolecular structure analysis. A fast graphical program for the exact simulation of nmr and nqr spectra for quadrupolar nuclei frederic a. A particularly successful experimental solidstate method is. Solidstate nmr 20 30 40 50 60 ppm 60 50 40 30 20 decoupling cp cp 1h c t mixing 1 t 2 protondriven spin diffusion decoupling structure by solidstate nmr carbon pdsd spectrum 300 200 100 ppm 300 200 100 ppm 300 100 200 300 ppm 200 100 ppm 300 200 100 ppm experiment simulation mixing time 500 ms t 355 k t 365 k mixing time 5 ms. General principles of nmr spectroscopy interactions relevant to nmr spectroscopy and their information content differences between solution and solid state nmr selectedspecial experimental techniques courses pciv.

New sss software thanks to the efforts of jim sethna, johannes voss, barry robinson, and craig fennie, the sss software has finally been upgraded for mac osx, linux and windows systems. Solid state nuclear magnetic resonance nmr has long emerged as a valuable technique for characterizing the molecular structure, conformation, and dynamics of polymer chains in various polymer systems. While static probes are solely used for special applications, mas is the routine method of choice, as it introduces resolution into the. Software to manage lab inventories and assets, find location, determine ownership, and more. Solid state nmr 20 30 40 50 60 ppm 60 50 40 30 20 decoupling cp cp 1h c t mixing 1 t 2 protondriven spin diffusion decoupling structure by solid state nmr carbon pdsd spectrum 300 200 100 ppm 300 200 100 ppm 300 100 200 300 ppm 200 100 ppm 300 200 100 ppm experiment simulation mixing time 500 ms t 355 k t 365 k mixing time 5 ms. External nmr software packages below is an overview of various nmrrelated programs, with some additional notes and links. The program is designed to emulate a nmr spectrometer by letting the user specify highlevel nmr concepts such as spin systems, nuclear spin interactions, rf irradiation, free precession, phase cycling, coherenceorder filtering, and implicitexplicit acquisition. H doublequantum nmr spectroscopy under fast mas in solids.

The new autoassign distribution automates the assignments of hn, nh, co, ca, cb, ha, and hb resonances in non, partially, and fullydeuterated samples. By contrast, solid state nmr spectra are very broad, as the full effects of anisotropic or orientationdependent interactions are observed in the spectrum. Developments in solidstate nmr spectroscopy of polymer. Wattos a software package consisting of programs for analyzing, annotating, parsing, archiving, and disseminating experimental nmr data deposited by authors world wide into the pdb. Perch nmr software processing, nmr prediction, spectral analysis, structure verification, quantification mnova. Spinevolution offers a simple nonalgorithmic definition of pulse sequences which authors. The program is designed to emulate a nmr spectrometer by letting the user specify high. Spinevolution is a flexible general purpose nmr simulation package suitable for simulation of a wide range of nmr experiments from cw liquid state nmr to solid state rotorsynchronized mas experiments, pfg experiments and optimization of shaped pulses. This becomes a practical problem if you simply want to simulate a cosy. This manual begins with the most frequently used solid state nmr experiments, and will be extended as time permits and as it is required by new development in nmr. The software allows straigthforward establishment of the orientations and magnitudes of anisotropic tensors for numerical simulations of peptideprotein solidstate nmr spectra using simpson mads bak, robert schultz, thomas vosegaard, and niels chr. The simulated spectra can be helpful for guiding the resonance assignment process and for deriving restraints for 3d structure calculations.

Simpson is a general purpose solid state nmr simulation software. Net and java versions that will run on windows, linux, mac and bsd using mono. External nmr software packages below is an overview of various nmr related programs, with some additional notes and links. Simpson is a general purpose solidstate nmr simulation software. The principles of the solid state c nmr crosspolarization experiment are described along with corresponding relaxation measurements. Services including instrument software qualifications, consulting and custom validations focused on data integrity. Solidstate nmr ssnmr spectroscopy is a special type of nuclear magnetic resonance nmr spectroscopy, characterized by the presence of anisotropic directionally dependent interactions. The original version of the software was described in the paper m. The ensuing recent applications of these techniques to.

As the final part in a series of articles on numerical simulations in solidstate nmr concepts magn reson 17a. This section provides links to various nmrrelated software packages that you might find useful. A powerful tool for the simulation of solid and liquid state nmr experiments, j. It work by numerical integration of the liouvillevon neumann equation, this require a complete description of the hamiltonian of the system this is done by simmol, and.

A particular advantage of solid state nmr and nmr spectroscopy, in general, is its ability to provide information on the dynamics of biomolecules. Services including instrumentsoftware qualifications, consulting and custom validations focused on data integrity. Solidstate mas nmr experiments were performed on bruker karlsruhe, germany advance iii solidstate nmr spectrometers, operating at 1 h and c larmor frequencies of 850. A computer program for fast and accurate numerical simulation of solid state nmr experiments is described. Multidimensional experiments use multiple pulse sequences to study different nuclei, or the same nuclei under differing conditions. Save everything as a selfcontained wsolids document in xml format. Several families of magic angle spinning mas probes, with sample diameters from 1. It can simulate 2d spectra for many common experimental setups. Software the pulse programs software below is made available to colleagues and collaborators in good faith but without making guarantees and without accepting liability for their use or misuse. This program has some very useful simulation options.

As a consequence, until a few years ago, the design of new techniques, particularly in the solidstate nmr, had to be often combined with the development of new problemspeci. Note the rss links of various user groups, as these provide a convenient way to keep up with changes, news and useful questions and answers. Exact numerical simulations of nmr experiments are often required for the development of new techniques and for the extraction of structural and dynamic information from the spectra. Links to simulation software to investigate new pulse sequences in solid state nmr i am using a series of simulation software.

In this paper we present a general simulation program for solidstate nmr spectroscopy simpson which is designed to work as a computer spectrometer. Wsolids1 is a program for the visualization and analysis of processed onedimensional solid state nmr data. The peakr software presented here can be of considerable help when analyzing solidstate nmr spectra of proteins. The principles of the solidstate c nmr crosspolarization experiment are described along with corresponding relaxation measurements. Conducting largescale solid state nmr simulations requires fast computer software potentially in combination with efficient computational resources to complete within a reasonable time frame.

Spinworks nmr data processing and simulation software from the university of manitoba. In this way, new solidstate nmr experiments can be designed which access spatial information, such as local proximities, as well as molecular dynamics. By contrast, solidstate nmr spectra are very broad, as the full effects of anisotropic or orientationdependent interactions are observed in the spectrum. The software allows straigthforward establishment of the orientations and magnitudes of anisotropic tensors for numerical simulations of peptideprotein solid state nmr spectra using simpson mads bak, robert schultz, thomas vosegaard, and niels chr. It is useful for commandline batch processing, particularly if nonstandard processing is needed.

Solid state nmr ssnmr spectroscopy is a special type of nuclear magnetic resonance nmr spectroscopy, characterized by the presence of anisotropic directionally dependent interactions. This manual begins with the most frequently used solidstate nmr experiments, and will be extended as time permits and as it. Such simulations may involve large spin systems, multipleparameter fitting of experimental spectra, or multiplepulse experiment design using parameter. Computerintensive simulation of solidstate nmr experiments.

A particular advantage of solidstate nmr and nmr spectroscopy, in general, is its ability to provide information on the dynamics of biomolecules. Assessment, development, and deployment of workflows from sample prep through final reports. What are the differences proscons of solution and solid. Compared to the more common solution nmr spectroscopy, ssnmr usually requires additional hardware for highpower radiofrequency irradiation and magicangle. Useful nmr resources the nmr facility staff has compiled a list of very useful nmrrelated resources to aid the user in proper data collection, analysis and understanding. Simulations of solid state magic angle spinning mas experiments can be particularly demanding both computationally and in terms of the programming required to. Simulations of solidstate magic angle spinning mas experiments can be particularly demanding both computationally and in terms of the programming required to. New sss software thanks to the efforts of jim sethna, johannes voss, barry robinson, and craig fennie, the sss software has finally been upgraded. Solidstate nuclear magnetic resonance nmr has long emerged as a valuable technique for characterizing the molecular structure, conformation, and dynamics of polymer chains in various polymer systems. There are many more alternatives for the simulation of solidstate nmr. In solid state nmr spectroscopy, motions on a broader timescale from the nano to the mill.