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 01-08-2015, 01:29 PM
nmrlearner's Avatar
Senior Member
 
Join Date: Jan 2005
Posts: 23,733
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 NMR-Detected Brownian Dynamics of ?B-Crystallin over a Wide Range of Concentrations.

NMR-Detected Brownian Dynamics of ?B-Crystallin over a Wide Range of Concentrations.

NMR-Detected Brownian Dynamics of ?B-Crystallin over a Wide Range of Concentrations.

Biophys J. 2015 Jan 6;108(1):98-106

Authors: Roos M, Link S, Balbach J, Krushelnitsky A, Saalwächter K

Abstract
Knowledge about the global translational and rotational motion of proteins under crowded conditions is highly relevant for understanding the function of proteins in*vivo. This holds in particular for human ?B-crystallin, which is strongly crowded in*vivo and inter alia responsible for preventing cataracts. Quantitative information on translational and rotational diffusion is not readily available, and we here demonstrate an approach that combines pulsed-field-gradient NMR for translational diffusion and proton T1?/T2 relaxation-time measurements for rotational diffusion, thus overcoming obstacles encountered in previous studies. The relaxation times measured at variable temperature provide a quantitative measure of the correlation function of protein tumbling, which cannot be approximated by a single exponential, because two components are needed for a minimal and adequate description of the data. We find that at high protein concentrations, rotational diffusion is decoupled from translational diffusion, the latter following the macroscopic viscosity change almost quantitatively, resembling the behavior of spherical colloids. Analysis of data reported in the literature shows that well-packed globular proteins follow a scaling relation between the hydrodynamic radius and the molar mass, Rh ~ M(1/d), with a fractal dimension of d ~ 2.5 rather than 3. Despite its oligomeric nature, Rh of ?B-crystallin as derived from both NMR methods is found to be fully consistent with this relation.


PMID: 25564856 [PubMed - as supplied by publisher]



More...
Reply With Quote


Did you find this post helpful? Yes | No

Reply
Similar Threads
Thread Thread Starter Forum Replies Last Post
[NMR paper] Ligand-Detected Relaxation Dispersion NMR Spectroscopy: Dynamics of preQ1 -RNA Binding.
Ligand-Detected Relaxation Dispersion NMR Spectroscopy: Dynamics of preQ1 -RNA Binding. Related Articles Ligand-Detected Relaxation Dispersion NMR Spectroscopy: Dynamics of preQ1 -RNA Binding. Angew Chem Int Ed Engl. 2014 Nov 17; Authors: Moschen T, Wunderlich CH, Spitzer R, Levic J, Micura R, Tollinger M, Kreutz C Abstract An NMR-based approach to characterizing the binding kinetics of ligand molecules to biomolecules, like RNA or proteins, by ligand-detected Carr-Purcell-Meiboom-Gill (CPMG) relaxation dispersion experiments is...
nmrlearner Journal club 0 11-19-2014 04:32 PM
[NMR paper] Insights into the Structure and Dynamics of Measles Virus Nucleocapsids by (1)H-detected Solid-state NMR.
Insights into the Structure and Dynamics of Measles Virus Nucleocapsids by (1)H-detected Solid-state NMR. Related Articles Insights into the Structure and Dynamics of Measles Virus Nucleocapsids by (1)H-detected Solid-state NMR. Biophys J. 2014 Aug 19;107(4):941-946 Authors: Barbet-Massin E, Felletti M, Schneider R, Jehle S, Communie G, Martinez N, Jensen MR, Ruigrok RW, Emsley L, Lesage A, Blackledge M, Pintacuda G Abstract (1)H-detected solid-state nuclear magnetic resonance (NMR) experiments are recorded on both intact...
nmrlearner Journal club 0 08-21-2014 06:43 PM
[NMR paper] Monitoring the interaction between ?2-microglobulin and the molecular chaperone ?B-crystallin by NMR and mass spectrometry. ?B-Crystallin dissociates ?2-microglobulin oligomers.
Monitoring the interaction between ?2-microglobulin and the molecular chaperone ?B-crystallin by NMR and mass spectrometry. ?B-Crystallin dissociates ?2-microglobulin oligomers. Related Articles Monitoring the interaction between ?2-microglobulin and the molecular chaperone ?B-crystallin by NMR and mass spectrometry. ?B-Crystallin dissociates ?2-microglobulin oligomers. J Biol Chem. 2013 May 3; Authors: Esposito G, Garvey M, Alverdi V, Pettirossi F, Corazza A, Fogolari F, Polano M, Mangione PP, Giorgetti S, Stoppini M, Rekas A, Bellotti V, Heck AJ, Carver JA...
nmrlearner Journal club 0 05-07-2013 01:30 PM
From NMR Relaxation to Fractional Brownian Dynamics in Proteins : Results from a Virtual Experiment.
From NMR Relaxation to Fractional Brownian Dynamics in Proteins : Results from a Virtual Experiment. From NMR Relaxation to Fractional Brownian Dynamics in Proteins : Results from a Virtual Experiment. J Phys Chem B. 2011 Aug 15; Authors: Calligari PA, Calandrini V, Kneller GR, Abergel D In a recent simulation study it has been shown that the time correlation functions probed by nuclear magnetic resonance (NMR) relaxation spectroscopy of proteins are well described by a fractional Brownian dynamics model, which accounts for the wide spectrum of...
nmrlearner Journal club 0 08-17-2011 01:33 PM
[NMR paper] NMR-detected hydrogen exchange and molecular dynamics simulations provide structural
NMR-detected hydrogen exchange and molecular dynamics simulations provide structural insight into fibril formation of prion protein fragment 106-126. Related Articles NMR-detected hydrogen exchange and molecular dynamics simulations provide structural insight into fibril formation of prion protein fragment 106-126. Proc Natl Acad Sci U S A. 2003 Dec 9;100(25):14790-5 Authors: Kuwata K, Matumoto T, Cheng H, Nagayama K, James TL, Roder H PrP106-126, a peptide corresponding to residues 107-127 of the human prion protein, induces neuronal cell...
nmrlearner Journal club 0 11-24-2010 09:16 PM
[NMR900 blog] World Wide Magnetic Resonance Conference 2010
World Wide Magnetic Resonance Conference 2010 Dear Colleague, The WWMR2010 Conference (joint EUROMAR 2010 and 17th ISMAR Conference) in Florence (Italy, July 4th-9th) is approaching fast. Registered attendees are growing daily! Please visit http://www.cerm.unifi.it/wwmr2010/ to see the list of the invited speakers, the titles of their talks, and all the details about the activities going on around the Conference. Abstract submission ends May 31st and a number of poster abstracts will be selected for upgrade to short oral presentations. If you wish to be considered for an upgrade,...
nmrlearner News from NMR blogs 0 08-22-2010 02:30 AM
[NMR900 blog] World Wide Magnetic Resonance Conference 2010
World Wide Magnetic Resonance Conference 2010 Dear Colleague, The WWMR2010 Conference (joint EUROMAR 2010 and 17th ISMAR Conference) in Florence (Italy, July 4th-9th) is approaching fast. Registered attendees are growing daily! Please visit http://www.cerm.unifi.it/wwmr2010/ to see the list of the invited speakers, the titles of their talks, and all the details about the activities going on around the Conference. Abstract submission ends May 31st and a number of poster abstracts will be selected for upgrade to short oral presentations. If you wish to be considered for an upgrade,...
nmrlearner News from NMR blogs 0 08-22-2010 02:18 AM
Antifreeze Glycoprotein Activity Correlates with Long-Range Protein-Water Dynamics
Antifreeze Glycoprotein Activity Correlates with Long-Range Protein-Water Dynamics Simon Ebbinghaus et al http://pubs.acs.org//appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja1051632/aop/images/medium/ja-2010-051632_0004.gifJournal of the American Chemical Society, Volume 0, Issue 0, Articles ASAP (As Soon As Publishable). Source: Journal of the American Chemical Society
nmrlearner Journal club 0 08-17-2010 05:52 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 05:06 PM.


Map