NMR paper Synergies of Single Molecule Fluorescence and NMR for the Study of Intrinsically Disordered Proteins

		BioNMR > Educational resources > Journal club
[NMR paper] Synergies of Single Molecule Fluorescence and NMR for the Study of Intrinsically Disordered Proteins

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

01-22-2022, 02:38 AM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,187

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

Synergies of Single Molecule Fluorescence and NMR for the Study of Intrinsically Disordered Proteins

Synergies of Single Molecule Fluorescence and NMR for the Study of Intrinsically Disordered Proteins

Single molecule fluorescence and nuclear magnetic resonance spectroscopy (NMR) are two very powerful techniques for the analysis of intrinsically disordered proteins (IDPs). Both techniques have individually made major contributions to deciphering the complex properties of IDPs and their interactions, and it has become evident that they can provide very complementary views on the distance-dynamics relationships of IDP systems. We now review the first approaches using both NMR and single molecule...

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[ASAP] Quantitative Description of Intrinsically Disordered Proteins Using Single-Molecule FRET, NMR, and SAXS Quantitative Description of Intrinsically Disordered Proteins Using Single-Molecule FRET, NMR, and SAXS Samuel Naudi-Fabra, Maud Tengo, Malene Ringkjbing Jensen, Martin Blackledge, and Sigrid Milles https://pubs.acs.org/na101/home/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/jacs.1c06264/20211124/images/medium/ja1c06264_0006.gif Journal of the American Chemical Society DOI: 10.1021/jacs.1c06264	nmrlearner	Journal club	0	11-25-2021 02:57 PM
[NMR paper] Quantitative Description of Intrinsically Disordered Proteins Using Single-Molecule FRET, NMR, and SAXS Quantitative Description of Intrinsically Disordered Proteins Using Single-Molecule FRET, NMR, and SAXS Studying the conformational landscape of intrinsically disordered and partially folded proteins is challenging and only accessible to a few solution state techniques, such as nuclear magnetic resonance (NMR), small-angle scattering techniques, and single-molecule Förster resonance energy transfer (smFRET). While each of the techniques is sensitive to different properties of the disordered chain, such as local structural propensities, overall dimension, or intermediate- and long-range...	nmrlearner	Journal club	0	11-25-2021 02:57 PM
Accurate model of liquid–liquid phase behavior of intrinsically disordered proteins from optimization of single-chain properties - pnas.org Accurate model of liquid–liquid phase behavior of intrinsically disordered proteins from optimization of single-chain properties - pnas.org Accurate model of liquid–liquid phase behavior of intrinsically disordered proteins from optimization of single-chain properties pnas.org Read here	nmrlearner	Online News	0	10-31-2021 11:03 AM
[ASAP] Conformational Ensembles of an Intrinsically Disordered Protein Consistent with NMR, SAXS, and Single-Molecule FRET Conformational Ensembles of an Intrinsically Disordered Protein Consistent with NMR, SAXS, and Single-Molecule FRET Gregory-Neal W. Gomes, Mickae?l Krzeminski, Ashley Namini, Erik W. Martin, Tanja Mittag, Teresa Head-Gordon, Julie D. Forman-Kay, and Claudiu C. Gradinaru https://pubs.acs.org/na101/home/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/jacs.0c02088/20200904/images/medium/ja0c02088_0006.gif Journal of the American Chemical Society DOI: 10.1021/jacs.0c02088 http://feeds.feedburner.com/~r/acs/jacsat/~4/ouvFj6sHuyQ	nmrlearner	Journal club	0	09-13-2020 09:18 AM
[NMR paper] Conformational ensembles of an intrinsically disordered protein consistent with NMR, SAXS and single-molecule FRET. Conformational ensembles of an intrinsically disordered protein consistent with NMR, SAXS and single-molecule FRET. Related Articles Conformational ensembles of an intrinsically disordered protein consistent with NMR, SAXS and single-molecule FRET. J Am Chem Soc. 2020 Aug 25;: Authors: Gomes GW, Krzeminski M, Namini A, Martin EW, Mittag T, Head-Gordon T, Forman-Kay JD, Gradinaru CC Abstract Intrinsically disordered proteins (IDPs) have fluctuating heterogeneous conformations, which makes structural characterization challenging,...	nmrlearner	Journal club	0	08-26-2020 02:46 PM
[NMR paper] Revealing Conformational Variants of Solution-Phase Intrinsically Disordered Tau Protein at the Single-Molecule Level Revealing Conformational Variants of Solution-Phase Intrinsically Disordered Tau Protein at the Single-Molecule Level Intrinsically disordered proteins, such as tau protein, adopt a variety of conformations in solution, complicating solution-phase structural studies. We employ an anti-Brownian electrokinetic (ABEL) trap to prolong measurements of single tau proteins in solution. Once trapped, we record the fluorescence anisotropy to investigate the diversity of conformations sampled by the single molecules. A distribution of anisotropy values obtained from trapped tau protein is...	nmrlearner	Journal club	0	10-24-2017 05:09 PM
[NMR paper] In-cell (13)C NMR spectroscopy for the study of intrinsically disordered proteins. In-cell (13)C NMR spectroscopy for the study of intrinsically disordered proteins. In-cell (13)C NMR spectroscopy for the study of intrinsically disordered proteins. Nat Protoc. 2014 Sep;9(9):2005-2016 Authors: Felli IC, Gonnelli L, Pierattelli R Abstract A large number of proteins carry out their function in highly flexible and disordered states, lacking a well-defined 3D structure. These proteins, referred to as intrinsically disordered proteins (IDPs), are now in the spotlight of modern structural biology. Nuclear magnetic...	nmrlearner	Journal club	0	08-01-2014 06:21 PM
[NMR paper] Novel methods based on 13C detection to study intrinsically disordered proteins Novel methods based on 13C detection to study intrinsically disordered proteins Publication date: April 2014 Source:Journal of Magnetic Resonance, Volume 241</br> Author(s): Isabella C. Felli , Roberta Pierattelli</br> Intrinsically disordered proteins (IDPs) are characterized by highly flexible solvent exposed backbones and can sample many different conformations. These properties confer them functional advantages, complementary to those of folded proteins, which need to be characterized to expand our view of how protein structural and dynamic features affect...	nmrlearner	Journal club	0	03-22-2014 01:28 AM

« 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