NMR paper Dynamics and Rigidity of an Intact Filamentous Bacteriophage Virus Probed by Magic Angle Spinning NMR.

		BioNMR > Educational resources > Journal club
[NMR paper] Dynamics and Rigidity of an Intact Filamentous Bacteriophage Virus Probed by Magic Angle Spinning NMR.

Webservers

NMR processing:

MDD

NMR assignment:

Backbone:

Side-chains:

NOEs:

Structure from NMR restraints:

Ab initio:

Fragment-based:

Rosetta-NMR (Robetta)

Template-based:

GeNMR

I-TASSER

Refinement:

Amber

Structure from chemical shifts:

Fragment-based:

Homology-based:

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:

NMR model quality:

NOEs, other restraints:

Chemical shifts:

RDCs:

Pseudocontact shifts:

Protein geomtery:

SAVES2 or SAVES4

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:

Isotope labeling:

Solid-state NMR:

View First Unread

Thread Tools

Search this Thread

Rate Thread

Display Modes

04-17-2018, 11:55 AM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,174

Points: 193,617, Level: 100

Level up: 0%, 0 Points needed

Activity: 50.7%

Last Achievements

Award-Showcase

NMR Credits: 0

NMR Points: 193,617

Downloads: 0

Uploads: 0

Dynamics and Rigidity of an Intact Filamentous Bacteriophage Virus Probed by Magic Angle Spinning NMR.

Dynamics and Rigidity of an Intact Filamentous Bacteriophage Virus Probed by Magic Angle Spinning NMR.

Related Articles Dynamics and Rigidity of an Intact Filamentous Bacteriophage Virus Probed by Magic Angle Spinning NMR.

Chemistry. 2018 Apr 16;:

Authors: Aharoni T, Goldbourt A

Abstract
The capsid dynamics of filamentous bacteriophages is related to their function, stability and interactions with the genome, and can be assessed by measuring the chemical shift anisotropy (CSA) of 15N-amides, which are sensitive to large amplitude motions. In this study, we used CSA recoupling experiments under magic-angle spinning NMR in order to probe the dynamics of the y21m capsid mutant of fd bacteriophage. We show, based on fitting those generated CSA lineshapes, that residues located in the N-terminus undergo increased motional amplitudes suggesting its global motion, while other backbone residues are rigid, and imply on a tight hydrophobic packing of the phage.

PMID: 29660798 [PubMed - as supplied by publisher]

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR paper] Filamentous Bacteriophage Viruses: Preparation, Magic-Angle Spinning Solid-State NMR Experiments, and Structure Determination. Filamentous Bacteriophage Viruses: Preparation, Magic-Angle Spinning Solid-State NMR Experiments, and Structure Determination. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--production.springer.de-OnlineResources-Logos-springerlink.gif Related Articles Filamentous Bacteriophage Viruses: Preparation, Magic-Angle Spinning Solid-State NMR Experiments, and Structure Determination. Methods Mol Biol. 2018;1688:67-97 Authors: Morag O, Sgourakis NG, Abramov G, Goldbourt A Abstract Filamentous bacteriophages are...	nmrlearner	Journal club	0	11-21-2017 10:10 PM
[NMR paper] The effects of high concentrations of ionic liquid on GB1 protein structure and dynamics probed by high-resolution magic-angle-spinning NMR spectroscopy. The effects of high concentrations of ionic liquid on GB1 protein structure and dynamics probed by high-resolution magic-angle-spinning NMR spectroscopy. Related Articles The effects of high concentrations of ionic liquid on GB1 protein structure and dynamics probed by high-resolution magic-angle-spinning NMR spectroscopy. Biochem Biophys Rep. 2016 Dec;8:75-80 Authors: Warner L, Gjersing E, Follett SE, Elliott KW, Dzyuba SV, Varga K Abstract Ionic liquids have great potential in biological applications and biocatalysis, as some...	nmrlearner	Journal club	0	07-20-2017 08:40 AM
[NMR paper] Structural Analysis of Human Cofilin 2/Filamentous Actin Assemblies: Atomic-Resolution Insights from Magic Angle Spinning NMR Spectroscopy. Structural Analysis of Human Cofilin 2/Filamentous Actin Assemblies: Atomic-Resolution Insights from Magic Angle Spinning NMR Spectroscopy. Related Articles Structural Analysis of Human Cofilin 2/Filamentous Actin Assemblies: Atomic-Resolution Insights from Magic Angle Spinning NMR Spectroscopy. Sci Rep. 2017 Mar 17;7:44506 Authors: Yehl J, Kudryashova E, Reisler E, Kudryashov D, Polenova T Abstract Cellular actin dynamics is an essential element of numerous cellular processes, such as cell motility, cell division and...	nmrlearner	Journal club	0	03-19-2017 10:38 PM
The effects of high concentrations of ionic liquid on GB1 protein structure and dynamics probed by high-resolution magic-angle-spinning NMR spectroscopy The effects of high concentrations of ionic liquid on GB1 protein structure and dynamics probed by high-resolution magic-angle-spinning NMR spectroscopy Publication date: Available online 11 August 2016 Source:Biochemistry and Biophysics Reports</br> Author(s): Lisa Warner, Erica Gjersing, Shelby E. Follett, K. Wade Elliott, Sergei V. Dzyuba, Krisztina Varga</br> Ionic liquids have great potential in biological applications and biocatalysis, as some ionic liquids can stabilize proteins and enhance enzyme activity, while others have the opposite effect....	nmrlearner	Journal club	0	08-11-2016 07:03 PM
[NMR paper] Magic-angle spinning NMR of intact bacteriophages: Insights into the capsid, DNA and their interface. Magic-angle spinning NMR of intact bacteriophages: Insights into the capsid, DNA and their interface. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Magic-angle spinning NMR of intact bacteriophages: Insights into the capsid, DNA and their interface. J Magn Reson. 2015 Apr;253:80-90 Authors: Abramov G, Morag O, Goldbourt A Abstract Bacteriophages are viruses that infect bacteria. They are complex macromolecular assemblies, which are composed of multiple...	nmrlearner	Journal club	0	03-24-2015 09:58 PM
[NMR paper] Magic-angle spinning NMR of intact bacteriophages: Insights into the capsid, DNA and their interface Magic-angle spinning NMR of intact bacteriophages: Insights into the capsid, DNA and their interface Publication date: April 2015 Source:Journal of Magnetic Resonance, Volume 253</br> Author(s): Gili Abramov , Omry Morag , Amir Goldbourt</br> Bacteriophages are viruses that infect bacteria. They are complex macromolecular assemblies, which are composed of multiple protein subunits that protect genomic material and deliver it to specific hosts. Various biophysical techniques have been used to characterize their structure in order to unravel phage morphogenesis....	nmrlearner	Journal club	0	03-22-2015 06:36 PM
[NMR paper] Pf1 bacteriophage hydration by magic angle spinning solid-state NMR. Pf1 bacteriophage hydration by magic angle spinning solid-state NMR. Pf1 bacteriophage hydration by magic angle spinning solid-state NMR. J Chem Phys. 2014 Dec 14;141(22):22D533 Authors: Sergeyev IV, Bahri S, Day LA, McDermott AE Abstract High resolution two- and three-dimensional heteronuclear correlation spectroscopy ((1)H-(13)C, (1)H-(15)N, and (1)H-(13)C-(13)C HETCOR) has provided a detailed characterization of the internal and external hydration water of the Pf1 virion. This long and slender virion (2000 nm × 7 nm) contains...	nmrlearner	Journal club	0	12-17-2014 09:43 PM
[NMR paper] High-resolution magic angle spinning 1H NMR spectroscopic studies on intact rat renal High-resolution magic angle spinning 1H NMR spectroscopic studies on intact rat renal cortex and medulla. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_120x27.gif Related Articles High-resolution magic angle spinning 1H NMR spectroscopic studies on intact rat renal cortex and medulla. Magn Reson Med. 1999 Jun;41(6):1108-18 Authors: Garrod S, Humpfer E, Spraul M, Connor SC, Polley S, Connelly J, Lindon JC, Nicholson JK, Holmes E High-resolution magic angle...	nmrlearner	Journal club	0	08-21-2010 04:03 PM

« Previous Thread | Next 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