Epr toolbox 24

EasyRefiner

Faced with fitting well over 30 experiments at room and low temperature at multiple frequencies, as all of my experiments are spin-labelled mutants of the same protein then surely their EPR properties would be similar. I decided that there must be a …

e2af

E2AF or “EPR 2 ASCII folder” is a folder version of E2A, whereby a folder of Bruker EPR files are converted to ASCII data files (readable by any operating system), by default the conversion is to *.csv files (comma separated values). …

Savitzky-Golay - sgol

The Savitzky-Golay smoothing function essentially applies a local polynominal fitting routine to a series of data points to then find the smoothed data points. This has the benefit that for sharp intense peaks (common to EPR) that the line broadening …

cwViewer

cwViewer is a tool for the easy opening, analysis, manipulation and plotting of cw EPR data and superceeds the previous function cwPlotter With an intuitive user interface, users can quickly create professional looking figures in seconds and export …

DEERextract - get data from DeerAnalysis

DeerAnalysis is a program from the team at ETH Zurich that allows for the easy conversion of DEER / PELDOR data into distance distributions. The program itself runs within MATLAB which is renowned for being difficult to make high quality figures …

EPR Converter (e2a)

The Bruker spectrometers output data by default in the Bruker BES3T format, which whilst being perfectly usable is not recognisable by most operating as standard. This script was originally written for the benefit of the project students in the lab …

BrukerWrite - Write Bruker BES3T files

This script allows for the writing of cw-EPR Bruker BES3T files (.DTA/.DSC) files from MATLAB onto your computer The script uses a graphical user interface to select file name and location, so minimal user line experience is required. Syntax …

addnoise

This script allows the user to add noise to a spectrum, in a manner almost exactly opposite to smoothing data. The script random adds noise to each data point of a spectrum within the range of +/- a percentage of the highest to lowest point. By …

Fsc2Read

This script allows for the loading of cw-EPR Fsc2 files from Jens Törring’s (FU Berlin) program Fsc2 into the MATLAB environment for data analysis. Syntax FSC2READ When no inputs are selected a “point and click” interface guides the …

JeolRead - load Jeol ESR files

This script allows for the loading of cw-EPR Jeol files (*.esr) into the MATLAB environment for data analysis. Syntax JEOLREAD When no inputs are selected a “point and click” interface guides the user through selecting a file JEOLREAD …

R1A to CYM

Traditionally the MTSL spin label bound to a Cysteine residue (Cys) is given the residue code R1A, at least in crystallography structures. However, some computer modelling programs prefer the identifier CYM. To switch between the two I’ve …

Power Saturation Curves

Feature implemented in EPRtoolbox or download now* Power saturation overview Determination of the effect of increasing microwave powers on the saturation behaviour of a sample can give information regarding the relaxation properties of the sample. At …

PDB Splitter

Feature implemented in EPRtoolbox or download now PDBs are great, however from time to time you only actually want one protein chain to analyse at a time. What you need to do then is split the PDB of many chains into separate PDB files. This MATLAB …

MMM Plotter - 2 spin labels

Feature implemented in EPRtoolbox or download now MMM is a program from the team at ETH Zurich which allows for the attachment of spin labels in silico. Once attached PELDOR (aka DEER) spectra can be simulate. With time a temperature assay can be …

MMM Plotter - 3 spin labels

Feature implemented in EPRtoolbox or download now Carrying on from the 2 spin label temperature assay figure creation script. I found myself trying to repeat my success on a system with 3 spin labels. Such systems give added complication as we now …

Version History

Release dates: Version Release date Notes v14.09 7th September 2014 1500+ downloads v14.05 15th April 2014 v14.02 15th March 2014 v13.12 11th December 2013 NEW: PulseGen v13.10 24th October 2013 1200 downloads v13.09 N/A v13.07 7th July 2013 v13.05 …

Plotting cw spectra with a g-value x-axis

cw-EPR spectra are common place in the lab, but often we report them simple as intensity against magnetic field in Gauss (G) or milli-Tesla (mT). However, in reality what we are actually interested is the frequency independent g-value. The problem is …

cwPlotter - the cw EPR plotting tool

This script has been superceded by cwViewer cwPlotter is a tool for the easy opening, analysis, manipulation and plotting of cw EPR data. With an intuitive user interface, users can quickly create professional looking figures in seconds. cwPlotter …

Amino Acid Converter - AAconverter

The amino acid converter (AAconverter) is a small user interface that I’ve put together for MATLAB that will transform amino acids between the 1 letter or 3 letter representation. Useful for any amount of DNA work. Simply, type or paste (from …

BrukerRead - load Bruker BES3T EPR files

This script loads Bruker EPR files into MATLAB. The script has been extensively tested with Bruker BES3T files (.DTA/.DSC). Originally it was built for cw-EPR files, but functionality has been added for 3 dimensional cw experiments (.DTA/.DSC/.YGF) …

cwplot

Implemented in the EPRtoolbox or direct download This script is a quick way of presenting cw-EPR spectra by taking data from arrays of magnetic field and intensity cwplot(x,y) Where, x and y can have any number of columns (so long there is the same …

Peakfinder

Feature implemented in EPRtoolbox or download now (requires fpeak) A simple MATLAB script to open an EPR spectra (requires eprload from S. Stoll’s EasySpin), baseline corrects to zero, plots the result and then finds all of the peaks. It …

MMM individual rotamer PDBs

This feature has been removed from the EPR toolbox as of version 12.9, due to MMM 2011.2 directly implementing this feature. This page remains for information purposes only. Feature implemented in EPRtoolbox MMM by default saves calculated rotamers …

cw Normaliser (cwnorm)

Feature implemented in EPRtoolbox or download now cw-EPR are useful, but when comparing numerous spectra things can become quite challenging especially when different powers or sample concentrations are used. By normalising (normalizing by American …