BioNMR
NMR aggregator & online community since 2003
BioNMR    
Learn or help to learn NMR - get free NMR books!
 

Go Back   BioNMR > Educational resources > Journal club
Advanced Search
Home Forums Wiki NMR feeds Downloads Register Today's Posts



Jobs Groups Conferences Literature Pulse sequences Software forums Programs Sample preps Web resources BioNMR issues


Webservers
NMR processing:
MDD
NMR assignment:
Backbone:
Autoassign
MARS
UNIO Match
PINE
Side-chains:
UNIO ATNOS-Ascan
NOEs:
UNIO ATNOS-Candid
UNIO Candid
ASDP
Structure from NMR restraints:
Ab initio:
GeNMR
Cyana
XPLOR-NIH
ASDP
UNIO ATNOS-Candid
UNIO Candid
Fragment-based:
BMRB CS-Rosetta
Rosetta-NMR (Robetta)
Template-based:
GeNMR
I-TASSER
Refinement:
Amber
Structure from chemical shifts:
Fragment-based:
WeNMR CS-Rosetta
BMRB CS-Rosetta
Homology-based:
CS23D
Simshift
Torsion angles from chemical shifts:
Preditor
TALOS
Promega- Proline
Secondary structure from chemical shifts:
CSI (via RCI server)
TALOS
MICS caps, β-turns
d2D
PECAN
Flexibility from chemical shifts:
RCI
Interactions from chemical shifts:
HADDOCK
Chemical shifts re-referencing:
Shiftcor
UNIO Shiftinspector
LACS
CheckShift
RefDB
NMR model quality:
NOEs, other restraints:
PROSESS
PSVS
RPF scores
iCing
Chemical shifts:
PROSESS
CheShift2
Vasco
iCing
RDCs:
DC
Anisofit
Pseudocontact shifts:
Anisofit
Protein geomtery:
Resolution-by-Proxy
PROSESS
What-If
iCing
PSVS
MolProbity
SAVES2 or SAVES4
Vadar
Prosa
ProQ
MetaMQAPII
PSQS
Eval123D
STAN
Ramachandran Plot
Rampage
ERRAT
Verify_3D
Harmony
Quality Control Check
NMR spectrum prediction:
FANDAS
MestReS
V-NMR
Flexibility from structure:
Backbone S2
Methyl S2
B-factor
Molecular dynamics:
Gromacs
Amber
Antechamber
Chemical shifts prediction:
From structure:
Shiftx2
Sparta+
Camshift
CH3shift- Methyl
ArShift- Aromatic
ShiftS
Proshift
PPM
CheShift-2- Cα
From sequence:
Shifty
Camcoil
Poulsen_rc_CS
Disordered proteins:
MAXOCC
Format conversion & validation:
CCPN
From NMR-STAR 3.1
Validate NMR-STAR 3.1
NMR sample preparation:
Protein disorder:
DisMeta
Protein solubility:
camLILA
ccSOL
Camfold
camGroEL
Zyggregator
Isotope labeling:
UPLABEL
Solid-state NMR:
sedNMR


Reply
 
Thread Tools Search this Thread Rate Thread Display Modes
  #1  
Old 05-11-2019, 07:56 PM
nmrlearner's Avatar
Senior Member
 
Join Date: Jan 2005
Posts: 23,777
Points: 193,617, Level: 100
Points: 193,617, Level: 100 Points: 193,617, Level: 100 Points: 193,617, Level: 100
Level up: 0%, 0 Points needed
Level up: 0% Level up: 0% Level up: 0%
Activity: 50.7%
Activity: 50.7% Activity: 50.7% Activity: 50.7%
Last Achievements
Award-Showcase
NMR Credits: 0
NMR Points: 193,617
Downloads: 0
Uploads: 0
Default NMRlib: user-friendly pulse sequence tools for Bruker NMR spectrometers

NMRlib: user-friendly pulse sequence tools for Bruker NMR spectrometers

Abstract

We present NMRlib, a suite of jython-based tools designed for Bruker spectrometers (TopSpin versions 3.2â??4.0) that allow easy setup, management, and exchange of NMR experiments. A NMR experiment can be set up and executed in a few clicks by navigating through the NMRlib GUI tree structure, without any further parameter adjustment. NMRlib is magnetic-field independent, and thus particularly helpful for laboratories operating multiple NMR spectrometers. NMRlib is easily personalized by adding, deleting, or reorganizing experiments. Additional tools are provided for data processing, visualization, and analysis. In particular, NMRlib contains all the polarization-enhanced fast-pulsing NMR experiments (SOFAST, BEST, HADAMAC,â?¦) developed in our laboratory over the last decade. We also discuss some specific features that have been implemented to make these experiments most efficient and user friendly.



Source: Journal of Biomolecular NMR
Reply With Quote


Did you find this post helpful? Yes | No

Reply
Similar Threads
Thread Thread Starter Forum Replies Last Post
[Question from NMRWiki Q&A forum] When to use 'BLKGRAD' and 'UNBLKGRAD' in a bruker pulse sequence ?
When to use 'BLKGRAD' and 'UNBLKGRAD' in a bruker pulse sequence ? I'm trying to modify some pulse sequence on bruker 400, and is confused with the use of 'blkgrad' and 'unblkgrad'; and ,what is the difference between 'blkgrad' and 'groff'? Check if somebody has answered this question on NMRWiki QA forum
nmrlearner News from other NMR forums 0 03-25-2016 04:12 PM
FRET Pursues Affordable, Robust, User-Friendly Instruments - Photonics.com
<img alt="" height="1" width="1" /> FRET Pursues Affordable, Robust, User-Friendly Instruments Photonics.com ... FRET-based solution structures for large and flexible proteins and their complexes, something that is quite challenging to do using standard structural biology techniques such as x-ray crystallography and NMR nuclear magnetic resonance ... FRET Pursues Affordable, Robust, User-Friendly Instruments - Photonics.com More...
nmrlearner Online News 0 04-10-2014 12:28 AM
[Question from NMRWiki Q&A forum] How to performing acquisition during all time multi pulse sequence - Bruker ?
How to performing acquisition during all time multi pulse sequence - Bruker ? Hi all, I have a small question on how to aquired a complete signal in BRUKER AVIII.I want to create a multi pulse sequence (1D), where I want to aquire the signal (sequentially) do not adding or replacing the data before each pulse. ||__________||_________||__________||___________ ... tp tp tp tp ...Performing Aquisition all time................. || - pulse
nmrlearner News from other NMR forums 0 10-10-2013 09:27 AM
[NMR paper] GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data.
From Mendeley Biomolecular NMR group: GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data. Journal of biomolecular NMR (2011). Ian R Kleckner, Mark P Foster et al. Molecular dynamics are essential for life, and nuclear magnetic resonance (NMR) spectroscopy has been used extensively to characterize these phenomena since the 1950s. For the past 15*years, the Carr-Purcell Meiboom-Gill relaxation dispersion (CPMG RD) NMR experiment has afforded advanced NMR labs access to kinetic, thermodynamic, and structural details of protein and RNA dynamics in the...
nmrlearner Journal club 0 11-22-2012 11:49 AM
[NMR paper] GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data.
From Mendeley Biomolecular NMR group: GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data. Journal of biomolecular NMR (2011). Ian R Kleckner, Mark P Foster et al. Molecular dynamics are essential for life, and nuclear magnetic resonance (NMR) spectroscopy has been used extensively to characterize these phenomena since the 1950s. For the past 15*years, the Carr-Purcell Meiboom-Gill relaxation dispersion (CPMG RD) NMR experiment has afforded advanced NMR labs access to kinetic, thermodynamic, and structural details of protein and RNA dynamics in the...
nmrlearner Journal club 0 10-12-2012 09:58 AM
[NMR paper] GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data.
From Mendeley Biomolecular NMR group: GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data. Journal of biomolecular NMR (2011). Ian R Kleckner, Mark P Foster et al. Molecular dynamics are essential for life, and nuclear magnetic resonance (NMR) spectroscopy has been used extensively to characterize these phenomena since the 1950s. For the past 15*years, the Carr-Purcell Meiboom-Gill relaxation dispersion (CPMG RD) NMR experiment has afforded advanced NMR labs access to kinetic, thermodynamic, and structural details of protein and RNA dynamics in the...
nmrlearner Journal club 0 08-24-2012 08:01 PM
[KPWU blog] GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data
GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data There is an article published at Journal of Biomolecular NMR recently which describes a package of MATLAB scripts to analyze CPMG relaxation dispersion NMR data. I haven’t done CPMG RD experiments on my target proteins, however, I know the analysis of CPMG RD data is not trivial. This program, GUARDD, seems to be a very http://stats.wordpress.com/b.gif?host=kpwu.wordpress.com&blog=76132&post=629&subd=kpwu&ref=&feed=1 Go to KPWU blog to read complete post.
nmrlearner News from NMR blogs 0 12-21-2011 04:12 AM
GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data
GUARDD: user-friendly MATLAB software for rigorous analysis of CPMG RD NMR data Abstract Molecular dynamics are essential for life, and nuclear magnetic resonance (NMR) spectroscopy has been used extensively to characterize these phenomena since the 1950s. For the past 15 years, the Carr-Purcell Meiboom-Gill relaxation dispersion (CPMG RD) NMR experiment has afforded advanced NMR labs access to kinetic, thermodynamic, and structural details of protein and RNA dynamics in the crucial μs-ms time window. However, analysis of RD data is challenging because datasets are often large and...
nmrlearner Journal club 0 12-13-2011 02:46 AM



Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is On
Trackbacks are Off
Pingbacks are Off
Refbacks are Off



BioNMR advertisements to pay for website hosting and domain registration. Nobody does it for us.



Powered by vBulletin® Version 3.7.3
Copyright ©2000 - 2024, Jelsoft Enterprises Ltd.
Copyright, BioNMR.com, 2003-2013
Search Engine Friendly URLs by vBSEO 3.6.0

All times are GMT. The time now is 02:08 PM.


Map