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



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  
Unread 11-24-2010, 09:16 PM
nmrlearner's Avatar
Senior Member
 
Join Date: Jan 2005
Posts: 23,387
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 The influence of internuclear spatial distribution and instrument noise on the precis

The influence of internuclear spatial distribution and instrument noise on the precision of distances determined by solid state NMR of isotopically enriched proteins.

Related Articles The influence of internuclear spatial distribution and instrument noise on the precision of distances determined by solid state NMR of isotopically enriched proteins.

J Biomol NMR. 2003 Nov;27(3):235-59

Authors: Gehman JD, Paulson EK, Zilm KW

The relative merits of different isotopic enrichment strategies that might be used in solid state NMR protein structure determinations are explored. The basis for comparison of these merits is the determination of the relative uncertainties in rates measured by a generalized dipolar recoupling experiment. The different schemes considered use (13)C, (15)N and (2)H labeling of ubiquitin with homonuclear magnetization-transfer type experiments under magic-angle spinning (MAS). Specific attention is given to the sensitivity of the predicted relative precisions to variation in natural nuclear density distribution and noise levels. A framework is suggested to gauge the precision of measurement of a given dipolar coupling constant, and the potential for a set of such measurements to constrain structure calculations is explored. The distribution of nuclei in homonuclear (15)N and (1)H dipolar recoupling spin-exchange experiments appear to provide the most promising tertiary structure information for uniformly labeled ubiquitin.

PMID: 12975583 [PubMed - indexed for MEDLINE]



Source: PubMed
Reply With Quote


Did you find this post helpful? Yes | No

Reply
Similar Threads
Thread Thread Starter Forum Replies Last Post
[NMRpipe Yahoo group] Re: Signal-to-noise estimation
Re: Signal-to-noise estimation Greetings, Dear Pipers, and Happy Winter Holidays, or Whatever ... There are lots of ways this could be done, depending on how rigorous you want to be, how More...
NMRpipe Yahoo group news News from other NMR forums 0 12-25-2011 10:35 PM
[NMRpipe Yahoo group] Signal-to-noise estimation
Signal-to-noise estimation Hello! I am new in "NMR world". I have some basic questions regarding the NMRPipe. I would like to know if there is a manner to estimate the signal-to-noise More...
NMRpipe Yahoo group news News from other NMR forums 0 12-25-2011 10:35 PM
[Question from NMRWiki Q&A forum] poor signal to noise on 1H-15N heteronculear NOE
poor signal to noise on 1H-15N heteronculear NOE I have recently attempted to run a 1H-15N heteronuclear NOE experiment in vnmrj (700 rt probe) using the standard sequence that comes with biopack, the signal to nose im getting compared to my standard HSQC is significantly reduced, is this normal? I do not recall this being the case when I ran this previously on a bruker 600 with RT probe? is this normal or does this suggest something is miss set? Also in the no NOE experiment I get very broad noise in the centre of my spectrum/water line. regards Tom
nmrlearner News from other NMR forums 0 11-01-2011 01:52 AM
[NMR paper] Analysis of error propagation from NMR-derived internuclear distances into molecular
Analysis of error propagation from NMR-derived internuclear distances into molecular structure of cyclo-pro-gly. Related Articles Analysis of error propagation from NMR-derived internuclear distances into molecular structure of cyclo-pro-gly. J Magn Reson. 1998 Dec;135(2):454-65 Authors: Dzakula Z, Jurani? , DeRider ML, Westler WM, Macura S, Markley JL Analytical expressions have been derived that translate uncertainties in distance constraints (obtained from NMR investigations) into uncertainties in atom positions in the maximum likelihood...
nmrlearner Journal club 0 11-17-2010 11:15 PM
[NMR paper] Solution structure of GAP SH3 domain by 1H NMR and spatial arrangement of essential R
Solution structure of GAP SH3 domain by 1H NMR and spatial arrangement of essential Ras signaling-involved sequence. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles Solution structure of GAP SH3 domain by 1H NMR and spatial arrangement of essential Ras signaling-involved sequence. EMBO J. 1994 Mar 15;13(6):1270-9 Authors: Yang YS, Garbay C, Duchesne M, Cornille F, Jullian N, Fromage N, Tocque B, Roques BP Src homology 3 (SH3) domains are found in numerous...
nmrlearner Journal club 0 08-22-2010 03:33 AM
[NMR Geek blog] Fluorescence: A source of noise in NMR?
Fluorescence: A source of noise in NMR? The other day I was reading a book “Experimental Pulse NMR: A Nuts and Bolt Approach” by Eiichi Fukushima and Stephen B W Roeder and I was encountered with a sentence which says,”Fluorescent lights generate noise which can be picked up in the spectrometer.” (para 1, page 13). I wonder if they are talking about Full story can be found on the NMR geek blog
nmrlearner News from NMR blogs 0 08-22-2010 01:41 AM
[Stan NMR blog] Noise Figure and Equivalent Input Noise
Noise Figure and Equivalent Input Noise An educational article about the definitions of - and the relation between - the two concepts. More...
nmrlearner News from NMR blogs 0 08-21-2010 06:14 PM
De novo determination of internuclear vector orientations from residual dipolar couplings measured in three independent alignment media
De novo determination of internuclear vector orientations from residual dipolar couplings measured in three independent alignment media Ke Ruan, Kathryn B. Briggman and Joel R. Tolman Journal of Biomolecular NMR; 2008; 41(2) pp 61 - 76 Abstract: The straightforward interpretation of solution state residual dipolar couplings (RDCs) in terms of internuclear vector orientations generally requires prior knowledge of the alignment tensor, which in turn is normally estimated using a structural model. We have developed a protocol which allows the requirement for prior structural knowledge to...
daniel Journal club 0 08-03-2008 03:54 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 02:14 PM.


Map