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

Go Back   BioNMR > Educational resources > NMR Questions and Answers
Advanced Search



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 Rating: Thread Rating: 1 votes, 5.00 average. Display Modes
  #1  
Unread 11-05-2008, 11:36 AM
Junior Member
 
Join Date: Apr 2006
Posts: 2
Points: 114, Level: 2
Points: 114, Level: 2 Points: 114, Level: 2 Points: 114, Level: 2
Level up: 28%, 36 Points needed
Level up: 28% Level up: 28% Level up: 28%
Activity: 0%
Activity: 0% Activity: 0% Activity: 0%
NMR Credits: 0
NMR Points: 114
Downloads: 0
Uploads: 0
Default Unanswered: Question about the accumulate time of the 5D spectrum?

To resolve overlapping resonances in a 2D spectrum of a protein acquired in 24 hours at 500MHz, a spectroscopist decided to measure a 5D spectrum using a 600MHz spectrometer. how long does he need to accumulate the 5D spectrum in order to reach the same signal-to-noise ratio as in the original 2D spectrum?
Reply With Quote


Did you find this post helpful? Yes | No

  #2  
Unread 07-16-2013, 03:32 PM
Junior Member
 
Join Date: Jun 2011
Posts: 1
Points: 10, Level: 1
Points: 10, Level: 1 Points: 10, Level: 1 Points: 10, Level: 1
Level up: 19%, 40 Points needed
Level up: 19% Level up: 19% Level up: 19%
Activity: 0%
Activity: 0% Activity: 0% Activity: 0%
NMR Credits: 0
NMR Points: 10
Downloads: 0
Uploads: 0
Default

it may take years to acquire a good resolution 5D spectrum using conventional sampling. Moreover a full 5D spectrum is a huge file (usually in T bytes) and its hard to navigate through such file for analysis. However..you can use time efficient acquisition by employing non-uniform sampling (NUS), also named as random or non-linear sampling. NUS data acquisition omits significant number of sampling points during the experiment and reconstruct them later. Because these methods require data sampled at uniform intervals, a two- to three-fold reduction in acquisition time can routinely be realized for each indirect time dimension that employs non uniform sampling.

For analysis..following may help.
TSAR: a program for automatic resonance assignment using 2D cross-sections of high dimensionality, high-resolution spectra - Springer
Reply With Quote


Did you find this post helpful? Yes | No
Reply
Similar Threads
Thread Thread Starter Forum Replies Last Post
[NMR software blog] Passing of Time
Passing of Time http://3.bp.blogspot.com/-vPwFcSPS0dI/TvNXrnwvn9I/AAAAAAAAAYw/IjDKKotuLl8/s400/2011_.pnghttp://1.bp.blogspot.com/-axtQbfR_brA/TvLi5U57qAI/AAAAAAAAAYY/iiz-Lo_jqzw/s400/2005.pngIn 2005 David Martineau drew the iNMR palette. In 2011 Pascal Fricke has drawn it again.https://blogger.googleusercontent.com/tracker/36798768-6074650131854993392?l=nmr-software.blogspot.com Source: NMR Software blog
nmrlearner News from NMR blogs 0 12-22-2011 09:27 PM
[NMR paper] Proton NMR spectroscopy shows lipids accumulate in skeletal muscle in response to burn trauma-induced apoptosis.
Proton NMR spectroscopy shows lipids accumulate in skeletal muscle in response to burn trauma-induced apoptosis. Related Articles Proton NMR spectroscopy shows lipids accumulate in skeletal muscle in response to burn trauma-induced apoptosis. FASEB J. 2005 Sep;19(11):1431-40 Authors: Astrakas LG, Goljer I, Yasuhara S, Padfield KE, Zhang Q, Gopalan S, Mindrinos MN, Dai G, Yu YM, Martyn JA, Tompkins RG, Rahme LG, Tzika AA Burn trauma triggers hypermetabolism and muscle wasting via increased cellular protein degradation and apoptosis. Proton...
nmrlearner Journal club 0 12-01-2010 06:56 PM
[Question from NMRWiki Q&A forum] Is it possible to keep increment time as zero in 2D?
Is it possible to keep increment time as zero in 2D? hi,i want to run NOESYPHPR with increment time as zero (d0=0).If possible, which software is easy to stack plot(in 1D-format)them. Check if somebody has answered this question on NMRWiki QA forum
nmrlearner News from other NMR forums 0 11-10-2010 04:10 AM
[Question from NMRWiki Q&A forum] Is it possible to keep increment time as zero in 2-d.
IS IT POSSIBLE TO KEEP INCREMENT TIME AS ZERO IN 2-D. hi,i want to run NOESYPHPR with increment time as zero (d0=0).If possible, which software is easy to stack plot(in 1D-format)them. Check if somebody has answered this question on NMRWiki QA forum
nmrlearner News from other NMR forums 0 11-09-2010 03:17 PM
Time machine
http://farm4.static.flickr.com/3536/3269201407_53e3f64124.jpg Time machine More...
nmrlearner NMR pictures 0 08-18-2010 01:12 PM
Not enough NMR time? Try Virtual NMR Spectrometer
Want to test your new pulse sequence before running a NMR experiment? Try Virtual NMR spectrometer from Dr. Fushman lab. See program description from Dr. Fushman website below. *************************************************************** The Virtual NMR Spectrometer; a Computer Program for Efficient Simulation of NMR Experiments Involving Pulsed Field Gradients Version 3.5 features and future developments: Translator that allows the user to input pulse sequences using the programming language of an actual experiment and/or to execute the same pulse programs used on actual...
nmrlearner NMR software 0 05-07-2005 10:08 AM
Proton Magnetic Res Spectrum Question?
The proton magnetic resonance spectrum of N,N-dimethylformamide shows two different chemical shifts for the hydrogen atoms on the methyl group. This phenomena is not due to spin-spin coupling.If not, what is it due to?
jeanettervetr NMR Questions and Answers 2 12-17-2004 06:50 AM


Thread Tools Search this Thread
Search this Thread:

Advanced Search
Display Modes Rate This Thread
Rate This Thread:

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 04:58 PM.


Map