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 07-08-2020, 05:24 PM
nmrlearner's Avatar
Senior Member
 
Join Date: Jan 2005
Posts: 23,137
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 In Situ Detection of Endogenous HIV Activation by Dynamic Nuclear Polarization NMR and Flow Cytometry.

In Situ Detection of Endogenous HIV Activation by Dynamic Nuclear Polarization NMR and Flow Cytometry.

Related Articles In Situ Detection of Endogenous HIV Activation by Dynamic Nuclear Polarization NMR and Flow Cytometry.

Int J Mol Sci. 2020 Jun 30;21(13):

Authors: Overall SA, Price LE, Albert BJ, Gao C, Alaniva N, Judge PT, Sesti EL, Wender PA, Kyei GB, Barnes AB

Abstract
We demonstrate for the first time in-cell dynamic nuclear polarization (DNP) in conjunction with flow cytometry sorting to address the cellular heterogeneity of in-cell samples. Utilizing a green fluorescent protein (GFP) reporter of HIV reactivation, we correlate increased 15N resonance intensity with cytokine-driven HIV reactivation in a human cell line model of HIV latency. As few as 10% GFP+ cells could be detected by DNP nuclear magnetic resonance (NMR). The inclusion of flow cytometric sorting of GFP+ cells prior to analysis by DNP-NMR further boosted signal detection through increased cellular homogeneity with respect to GFP expression. As few as 3.6 million 15N-labeled GFP+ cells could be readily detected with DNP-NMR. Importantly, cell sorting allowed for the comparison of cytokine-treated GFP+ and GFP- cells in a batch-consistent way. This provides an avenue for normalizing NMR spectral contributions from background cellular processes following treatment with cellular modulators. We also demonstrate the remarkable stability of AMUPol (a nitroxide biradical) in Jurkat T cells and achieved in-cell enhancements of 46 with 10 mM AMUPol, providing an excellent model system for further in-cell DNP-NMR studies. This represents an important contribution to improving in-cell methods for the study of endogenously expressed proteins by DNP-NMR.


PMID: 32629894 [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
Endogenous Dynamic Nuclear Polarization for Sensitivity Enhancement in Solid-State NMR of Electrode Materials #DNPNMR
From The DNP-NMR Blog: Endogenous Dynamic Nuclear Polarization for Sensitivity Enhancement in Solid-State NMR of Electrode Materials #DNPNMR Harchol, Adi, Guy Reuveni, Vitalii Ri, Brijith Thomas, Raanan Carmieli, Rolfe H. Herber, Chunjoong Kim, and Michal Leskes. “Endogenous Dynamic Nuclear Polarization for Sensitivity Enhancement in Solid-State NMR of Electrode Materials.” The Journal of Physical Chemistry C 124, no. 13 (April 2, 2020): 7082–90. https://doi.org/10.1021/acs.jpcc.0c00858.
nmrlearner News from NMR blogs 0 05-16-2020 02:10 AM
Endogenous dynamic nuclear polarization NMR of hydride-terminated silicon nanoparticles #DNPNMR
From The DNP-NMR Blog: Endogenous dynamic nuclear polarization NMR of hydride-terminated silicon nanoparticles #DNPNMR Ha, Michelle, Alyxandra N. Thiessen, Ivan V. Sergeyev, Jonathan G.C. Veinot, and Vladimir K. Michaelis. “Endogenous Dynamic Nuclear Polarization NMR of Hydride-Terminated Silicon Nanoparticles.” Solid State Nuclear Magnetic Resonance 100 (August 2019): 77–84. https://doi.org/10.1016/j.ssnmr.2019.04.001.
nmrlearner News from NMR blogs 0 05-06-2019 04:47 PM
Endogenous Dynamic Nuclear Polarization for Natural Abundance 17O and Lithium NMR in the Bulk of Inorganic Solids #DNPNMR
From The DNP-NMR Blog: Endogenous Dynamic Nuclear Polarization for Natural Abundance 17O and Lithium NMR in the Bulk of Inorganic Solids #DNPNMR Wolf, Tamar, Sandeep Kumar, Harishchandra Singh, Tanmoy Chakrabarty, Fabien Aussenac, Anatoly I Frenkel, Dan Thomas Major, and Michal Leskes. “Endogenous Dynamic Nuclear Polarization for Natural Abundance 17O and Lithium NMR in the Bulk of Inorganic Solids.” Journal of the American Chemical Society, n.d., 23. https://pubs.acs.org/doi/abs/10.1021/jacs.8b11015
nmrlearner News from NMR blogs 0 03-30-2019 05:11 AM
In Situ Characterization of Pharmaceutical Formulations by Dynamic Nuclear Polarization Enhanced MAS NMR #DNPNMR
From The DNP-NMR Blog: In Situ Characterization of Pharmaceutical Formulations by Dynamic Nuclear Polarization Enhanced MAS NMR #DNPNMR p.p1 {margin: 0.0px 0.0px 0.0px 36.0px; text-indent: -36.0px; font: 12.0px Helvetica} Ni, Q.Z., et al., In Situ Characterization of Pharmaceutical Formulations by Dynamic Nuclear Polarization Enhanced MAS NMR. The Journal of Physical Chemistry B, 2017. 121(34): p. 8132-8141. http://dx.doi.org/10.1021/acs.jpcb.7b07213
nmrlearner News from NMR blogs 0 12-09-2017 07:49 AM
Investigation of the Binding Interaction of FattyAcids with Human G Protein-Coupled Receptor 40 Using a Site-SpecificFluorescence Probe by Flow Cytometry
Investigation of the Binding Interaction of FattyAcids with Human G Protein-Coupled Receptor 40 Using a Site-SpecificFluorescence Probe by Flow Cytometry http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.6b00079/20160317/images/medium/bi-2016-00079r_0007.gif Biochemistry DOI: 10.1021/acs.biochem.6b00079 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/OkklAJsEsGE More...
nmrlearner Journal club 0 03-18-2016 04:29 AM
Implementation and characterization of flow injection in dissolution dynamic nuclear polarization NMR spectroscopy
From The DNP-NMR Blog: Implementation and characterization of flow injection in dissolution dynamic nuclear polarization NMR spectroscopy Chen, H.Y. and C. Hilty, Implementation and characterization of flow injection in dissolution dynamic nuclear polarization NMR spectroscopy. ChemPhysChem, 2015. 16(12): p. 2646-52. http://www.ncbi.nlm.nih.gov/pubmed/26139513
nmrlearner News from NMR blogs 0 11-14-2015 01:44 AM
Endogenous Stable Radicals for Characterization of Thermally Carbonized Porous Silicon by Solid-State Dynamic Nuclear Polarization 13C NMR
From The DNP-NMR Blog: Endogenous Stable Radicals for Characterization of Thermally Carbonized Porous Silicon by Solid-State Dynamic Nuclear Polarization 13C NMR Riikonen, J., et al., Endogenous Stable Radicals for Characterization of Thermally Carbonized Porous Silicon by Solid-State Dynamic Nuclear Polarization13C NMR. The Journal of Physical Chemistry C, 2015. 119(33): p. 19272-19278. http://dx.doi.org/10.1021/acs.jpcc.5b05970
nmrlearner News from NMR blogs 0 08-26-2015 11:52 PM
Magic Angle Spinning NMR of Proteins: High-Frequency Dynamic Nuclear Polarization and H Detection
From The DNP-NMR Blog: Magic Angle Spinning NMR of Proteins: High-Frequency Dynamic Nuclear Polarization and H Detection Su, Y., L. Andreas, and R.G. Griffin, Magic Angle Spinning NMR of Proteins: High-Frequency Dynamic Nuclear Polarization and H Detection. Annu Rev Biochem, 2015. http://www.ncbi.nlm.nih.gov/pubmed/25839340
nmrlearner News from NMR blogs 0 04-17-2015 08:49 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 - 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 03:24 PM.


Map