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 11-21-2017, 10:10 PM
nmrlearner's Avatar
Senior Member
 
Join Date: Jan 2005
Posts: 20,165
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 Strategies for Efficient Sample Preparation for Dynamic Nuclear Polarization Solid-State NMR of Biological Macromolecules.

Strategies for Efficient Sample Preparation for Dynamic Nuclear Polarization Solid-State NMR of Biological Macromolecules.

Related Articles Strategies for Efficient Sample Preparation for Dynamic Nuclear Polarization Solid-State NMR of Biological Macromolecules.

Methods Mol Biol. 2018;1688:133-154

Authors: Itin B, Sergeyev IV

Abstract
Solid-state NMR (SSNMR) is a powerful tool for the elucidation of structure and dynamics in biological macromolecules. Over the years, SSNMR spectroscopists have developed an array of techniques enabling the measurement of internuclear correlations, distances, and torsional angles; these have been applied to the study of a number of biological systems that are difficult to study by X-ray crystallography and solution NMR, including key biological targets such as membrane proteins and amyloid fibrils. Applications of SSNMR to other topic areas, including materials science, pharmaceuticals, and small molecules, have also flourished in recent years. These studies, however, have always been hampered by the low inherent sensitivity of SSNMR, requiring large amounts of both sample and time for data collection. By taking advantage of unpaired electrons doped into a sample as a ready source of additional nuclear polarization, dynamic nuclear polarization (DNP) has brought about large improvements in SSNMR sensitivity. These, in turn, have enabled structural studies of previously inaccessible targets, such as large protein complexes, nucleic acids, viral capsids, and membrane proteins in vivo. Herein, we focus on sample preparation strategies and considerations for scientists interested in applying DNP to challenging systems.


PMID: 29151208 [PubMed - in process]



More...
Reply With Quote


Did you find this post helpful? Yes | No

Reply
Similar Threads
Thread Thread Starter Forum Replies Last Post
[NMR paper] Sample Preparation for Membrane Protein Structural Studies by Solid-State NMR.
Sample Preparation for Membrane Protein Structural Studies by Solid-State NMR. Related Articles Sample Preparation for Membrane Protein Structural Studies by Solid-State NMR. Methods Mol Biol. 2017;1635:345-358 Authors: Lacabanne D, Kunert B, Gardiennet C, Meier BH, Bo Ckmann A Abstract Conformational studies of membrane proteins remain a challenge in the field of structural biology, and in particular the investigation of the proteins in a native-like lipid environment. Solid-state NMR presents a valuable opportunity for...
nmrlearner Journal club 0 07-30-2017 08:04 PM
Dynamic Nuclear Polarization of beta-Cyclodextrin Macromolecules #DNPNMR
From The DNP-NMR Blog: Dynamic Nuclear Polarization of beta-Cyclodextrin Macromolecules #DNPNMR p.p1 {margin: 0.0px 0.0px 0.0px 36.0px; text-indent: -36.0px; font: 12.0px Helvetica} Caracciolo, F., et al., Dynamic Nuclear Polarization of beta-Cyclodextrin Macromolecules. J Phys Chem B, 2017. 121(12): p. 2584-2593. https://www.ncbi.nlm.nih.gov/pubmed/28260385
nmrlearner News from NMR blogs 0 06-28-2017 07:37 PM
Dynamic Nuclear Polarization of ?-Cyclodextrin Macromolecules #DNPNMR
From The DNP-NMR Blog: Dynamic Nuclear Polarization of ?-Cyclodextrin Macromolecules #DNPNMR p.p1 {margin: 0.0px 0.0px 0.0px 36.0px; text-indent: -36.0px; font: 12.0px Helvetica} Caracciolo, F., et al., Dynamic Nuclear Polarization of ?-Cyclodextrin Macromolecules. The Journal of Physical Chemistry B, 2017. http://dx.doi.org/10.1021/acs.jpcb.7b00836
nmrlearner News from NMR blogs 0 04-03-2017 05:37 PM
Silica materials with wall-embedded nitroxides provide efficient polarization matrices for dynamic nuclear polarization NMR #DNPNMR
From The DNP-NMR Blog: Silica materials with wall-embedded nitroxides provide efficient polarization matrices for dynamic nuclear polarization NMR #DNPNMR Besson, E., et al., Silica materials with wall-embedded nitroxides provide efficient polarization matrices for dynamic nuclear polarization NMR. Chem Commun (Camb), 2016. 52(32): p. 5531-3. http://www.ncbi.nlm.nih.gov/pubmed/27020483
nmrlearner News from NMR blogs 0 08-17-2016 11:34 PM
Efficient DNP NMR of membrane proteins: sample preparation protocols, sensitivity, and radical location
From The DNP-NMR Blog: Efficient DNP NMR of membrane proteins: sample preparation protocols, sensitivity, and radical location Liao, S.Y., et al., Efficient DNP NMR of membrane proteins: sample preparation protocols, sensitivity, and radical location. J Biomol NMR, 2016: p. 1-15. http://www.ncbi.nlm.nih.gov/pubmed/26873390
nmrlearner News from NMR blogs 0 02-25-2016 05:21 AM
[NMR paper] Efficient DNP NMR of membrane proteins: sample preparation protocols, sensitivity, and radical location.
Efficient DNP NMR of membrane proteins: sample preparation protocols, sensitivity, and radical location. Related Articles Efficient DNP NMR of membrane proteins: sample preparation protocols, sensitivity, and radical location. J Biomol NMR. 2016 Feb 12; Authors: Liao SY, Lee M, Wang T, Sergeyev IV, Hong M Abstract Although dynamic nuclear polarization (DNP) has dramatically enhanced solid-state NMR spectral sensitivities of many synthetic materials and some biological macromolecules, recent studies of membrane-protein DNP using...
nmrlearner Journal club 0 02-14-2016 08:25 PM
Efficient DNP NMR of membrane proteins: sample preparation protocols, sensitivity, and radical location
Efficient DNP NMR of membrane proteins: sample preparation protocols, sensitivity, and radical location Abstract Although dynamic nuclear polarization (DNP) has dramatically enhanced solid-state NMR spectral sensitivities of many synthetic materials and some biological macromolecules, recent studies of membrane-protein DNP using exogenously doped paramagnetic radicals as polarizing agents have reported varied and sometimes surprisingly limited enhancement factors. This motivated us to carry out a systematic evaluation of sample preparation protocols...
nmrlearner Journal club 0 02-12-2016 11:26 PM
Optimizing sample preparation methods for dynamic nuclear polarization solid-state NMR of synthetic polymers
From The DNP-NMR Blog: Optimizing sample preparation methods for dynamic nuclear polarization solid-state NMR of synthetic polymers Le, D., et al., Optimizing sample preparation methods for dynamic nuclear polarization solid-state NMR of synthetic polymers. Macromolecules, 2014: p. 140613123939001. http://pubs.acs.org/doi/abs/10.1021/ma500788n
nmrlearner News from NMR blogs 0 06-18-2014 06:09 PM


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 - 2020, 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 03:50 PM.


Map