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 11-13-2020, 04:07 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 Insights into a Protein-Nanoparticle System by Paramagnetic Perturbation NMR Spectroscopy.

Insights into a Protein-Nanoparticle System by Paramagnetic Perturbation NMR Spectroscopy.

Related Articles Insights into a Protein-Nanoparticle System by Paramagnetic Perturbation NMR Spectroscopy.

Molecules. 2020 Nov 07;25(21):

Authors: Hunashal Y, Cantarutti C, Giorgetti S, Marchese L, Fogolari F, Esposito G

Abstract
BACKGROUND: The interaction between proteins and nanoparticles is a very relevant subject because of the potential applications in medicine and material science in general. Further interest derives from the amyloidogenic character of the considered protein, ?2-microglobulin (?2m), which may be regarded as a paradigmatic system for possible therapeutic strategies. Previous evidence showed in fact that gold nanoparticles (AuNPs) are able to inhibit ?2m fibril formation in vitro.
METHODS: NMR (Nuclear Magnetic Resonance) and ESR (Electron Spin Resonance) spectroscopy are employed to characterize the paramagnetic perturbation of the extrinsic nitroxide probe Tempol on ?2m in the absence and presence of AuNPs to determine the surface accessibility properties and the occurrence of chemical or conformational exchange, based on measurements conducted under magnetization equilibrium and non-equilibrium conditions.
RESULTS: The nitroxide perturbation analysis successfully identifies the protein regions where protein-protein or protein-AuNPs interactions hinder accessibility or/and establish exchange contacts. These information give interesting clues to recognize the fibrillation interface of ?2m and hypothesize a mechanism for AuNPs fibrillogenesis inhibition.
CONCLUSIONS: The presented approach can be advantageously applied to the characterization of the interface in protein-protein and protein-nanoparticles interactions.


PMID: 33171781 [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] Correction: Exploring exchange processes in proteins by paramagnetic perturbation of NMR spectra.
Correction: Exploring exchange processes in proteins by paramagnetic perturbation of NMR spectra. Related Articles Correction: Exploring exchange processes in proteins by paramagnetic perturbation of NMR spectra. Phys Chem Chem Phys. 2020 Jul 16;: Authors: Hunashal Y, Cantarutti C, Giorgetti S, Marchese L, Molinari H, Niccolai N, Fogolari F, Esposito G Abstract Correction for 'Exploring exchange processes in proteins by paramagnetic perturbation of NMR spectra' by Yamanappa Hunashal et al., Phys. Chem. Chem. Phys., 2020, 22,...
nmrlearner Journal club 0 07-18-2020 10:53 AM
[NMR paper] Nanoparticle-assisted NMR spectroscopy: A chemosensing perspective.
Nanoparticle-assisted NMR spectroscopy: A chemosensing perspective. Related Articles Nanoparticle-assisted NMR spectroscopy: A chemosensing perspective. Prog Nucl Magn Reson Spectrosc. 2020 Apr;117:70-88 Authors: De Biasi F, Mancin F, Rastrelli F Abstract Sensing methodologies for the detection of target compounds in mixtures are important in many different contexts, ranging from medical diagnosis to environmental analysis and quality assessment. Ideally, such detection methods should allow for both identification and...
nmrlearner Journal club 0 05-31-2020 03:53 PM
New insights into the nature of short-lived paramagnetic intermediates of ketoprofen. Photo-CIDNP study
From The DNP-NMR Blog: New insights into the nature of short-lived paramagnetic intermediates of ketoprofen. Photo-CIDNP study Babenko, Simon V., Polina S. Kuznetsova, Nikolay E. Polyakov, Aleksandr I. Kruppa, and Tatyana V. Leshina. “New Insights into the Nature of Short-Lived Paramagnetic Intermediates of Ketoprofen. Photo-CIDNP Study.” Journal of Photochemistry and Photobiology A: Chemistry 392 (April 2020): 112383. https://doi.org/10.1016/j.jphotochem.2020.112383.
nmrlearner News from NMR blogs 0 04-25-2020 12:56 PM
[NMR paper] Exploring exchange processes in proteins by paramagnetic perturbation of NMR spectra.
Exploring exchange processes in proteins by paramagnetic perturbation of NMR spectra. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/https:--www.rsc-cdn.org-oxygen-assets-logo-rsc-logo-btn-small.gif Related Articles Exploring exchange processes in proteins by paramagnetic perturbation of NMR spectra. Phys Chem Chem Phys. 2020 Mar 04;: Authors: Hunashal Y, Cantarutti C, Giorgetti S, Marchese L, Molinari H, Niccolai N, Fogolari F, Esposito G Abstract The effect of extrinsic paramagnetic probes on NMR relaxation...
nmrlearner Journal club 0 03-07-2020 06:20 PM
[NMR paper] Mechanistic Insights into Nanoparticle Surface Adsorption by Solution NMR Spectroscopy in an Aqueous Gel
Mechanistic Insights into Nanoparticle Surface Adsorption by Solution NMR Spectroscopy in an Aqueous Gel Engineering nanoparticle (NP) functions at molecular level requires a detailed understanding of the dynamic processes occurring at the NP surface. Here we show that the combined analysis of Dark state Exchange Saturation Transfer (DEST) and Relaxation Dispersion (RD) NMR experiments acquired on gel-stabilized samples of NP allows for accurate determination of the kinetics and thermodynamics of adsorption. We used the former approach to describe the interaction of cholic acid (CA) and...
nmrlearner Journal club 0 06-23-2017 02:24 AM
Heme Trafficking and Modifications during System I Cytochrome c Biogenesis: Insights from Heme Redox Potentials of Ccm Proteins
Heme Trafficking and Modifications during System I Cytochrome c Biogenesis: Insights from Heme Redox Potentials of Ccm Proteins http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.6b00427/20160525/images/medium/bi-2016-00427z_0005.gif Biochemistry DOI: 10.1021/acs.biochem.6b00427 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/rjyqRfBOAi4 More...
nmrlearner Journal club 0 05-27-2016 04:11 AM
[NMR paper] The study of transient protein-nanoparticle interactions by solution NMR spectroscopy.
The study of transient protein-nanoparticle interactions by solution NMR spectroscopy. Related Articles The study of transient protein-nanoparticle interactions by solution NMR spectroscopy. Biochim Biophys Acta. 2015 Apr 30; Authors: Assfalg M, Ragona L, Pagano K, D'Onofrio M, Zanzoni S, Tomaselli S, Molinari H Abstract The rapid development of novel nanoscale materials for applications in biomedicine urges an improved characterization of the nano-bio interfaces. Nanoparticles exhibit unique structures and properties, often...
nmrlearner Journal club 0 05-06-2015 11:59 AM
The study of transient protein-nanoparticle interactions by solution NMR spectroscopy
The study of transient protein-nanoparticle interactions by solution NMR spectroscopy Publication date: Available online 30 April 2015 Source:Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics</br> Author(s): Michael Assfalg , Laura Ragona , Katiuscia Pagano , Mariapina D’Onofrio , Serena Zanzoni , Simona Tomaselli , Henriette Molinari</br> The rapid development of novel nanoscale materials for applications in biomedicine urges an improved characterization of the nano-bio interfaces. Nanoparticles exhibit unique structures and properties, often...
nmrlearner Journal club 0 04-30-2015 09:13 PM



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 01:54 PM.


Map