How does it really move? Recent progress in the investigation of protein nanosecond dynamics by NMR and simulation - ScienceDirect

		BioNMR > NMR community > Online News
How does it really move? Recent progress in the investigation of protein nanosecond dynamics by NMR and simulation - ScienceDirect

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:

Thread Tools

Search this Thread

Rate Thread

Display Modes

12-28-2023, 10:50 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,777

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

How does it really move? Recent progress in the investigation of protein nanosecond dynamics by NMR and simulation - ScienceDirect

How does it really move? Recent progress in the investigation of protein nanosecond dynamics by NMR and simulation - ScienceDirect

How does it really move? Recent progress in the investigation of protein nanosecond dynamics by NMR and simulation ScienceDirect Read here

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
Conformational dynamics and kinetics of protein interactions by nuclear magnetic resonance - ScienceDirect Conformational dynamics and kinetics of protein interactions by nuclear magnetic resonance ScienceDirect Conformational dynamics and kinetics of protein interactions by nuclear magnetic resonance - ScienceDirect More...	nmrlearner	Online News	0	05-13-2023 02:21 PM
[NMR paper] How does it really move? Recent progress in the investigation of protein nanosecond dynamics by NMR and simulation How does it really move? Recent progress in the investigation of protein nanosecond dynamics by NMR and simulation Nuclear magnetic resonance (NMR) spin relaxation experiments currently probe molecular motions on timescales from picoseconds to nanoseconds. The detailed interpretation of these motions in atomic detail benefits from complementarity with the results from molecular dynamics (MD) simulations. In this mini-review, we describe the recent developments in experimental techniques to study the backbone dynamics from ^(15)N relaxation and side-chain dynamics from ^(13)C relaxation,...	nmrlearner	Journal club	0	09-26-2022 02:08 AM
[NMR paper] Recent progress of in-cell NMR of nucleic acids in living human cells. Recent progress of in-cell NMR of nucleic acids in living human cells. Related Articles Recent progress of in-cell NMR of nucleic acids in living human cells. Biophys Rev. 2020 Mar 06;: Authors: Yamaoki Y, Nagata T, Sakamoto T, Katahira M Abstract The inside of living cells is highly crowded with biological macromolecules. It has long been considered that the properties of nucleic acids and proteins, such as their structures, dynamics, interactions, and enzymatic activities, in intracellular environments are different from those...	nmrlearner	Journal club	0	03-09-2020 01:12 PM
[NMR paper] Recent progress on the application of (2)H solid-state NMR to probe the interaction of antimicrobial peptides with intact bacteria. Recent progress on the application of (2)H solid-state NMR to probe the interaction of antimicrobial peptides with intact bacteria. Related Articles Recent progress on the application of (2)H solid-state NMR to probe the interaction of antimicrobial peptides with intact bacteria. Biochim Biophys Acta. 2017 Aug 24;: Authors: Booth V, Warschawski DE, Santisteban NP, Laadhari M, Marcotte I Abstract Discoveries relating to innate immunity and antimicrobial peptides (AMPs) granted Bruce Beutler and Jules Hoffmann a Nobel prize in...	nmrlearner	Journal club	0	08-29-2017 05:35 PM
[NMR paper] Recent excitements in protein NMR: Large proteins and biologically relevant dynamics. Recent excitements in protein NMR: Large proteins and biologically relevant dynamics. Related Articles Recent excitements in protein NMR: Large proteins and biologically relevant dynamics. J Biosci. 2016 Dec;41(4):787-803 Authors: Chiliveri SC, Deshmukh MV Abstract The advent of Transverse Relaxation Optimized SpectroscopY (TROSY) and perdeuteration allowed biomolecular NMR spectroscopists to overcome the size limitation barrier (approx. 20 kDa) in de novo structure determination of proteins. The utility of these techniques...	nmrlearner	Journal club	0	12-15-2016 06:49 PM
Intrinsically disordered proteins I like to move it, move it - Nature.com Intrinsically disordered proteins I like to move it, move it - Nature.com <img alt="" height="1" width="1"> Intrinsically disordered proteins I like to move it, move it Nature.com Milles et al. used NMR spectroscopy to show that the ProXxxPheGly-rich domain of Nup153 (Nup153FGPxFG) is highly disordered in solution, with very little secondary structure. Only minor changes in the NMR spectrum were observed when importin β was ... Read here	nmrlearner	Online News	0	11-18-2015 02:58 AM
[NMR paper] Investigation of ligand-receptor systems by high-resolution solid-state NMR: recent p Investigation of ligand-receptor systems by high-resolution solid-state NMR: recent progress and perspectives. Related Articles Investigation of ligand-receptor systems by high-resolution solid-state NMR: recent progress and perspectives. Arch Pharm (Weinheim). 2005 Jun;338(5-6):217-28 Authors: Luca S, Heise H, Lange A, Baldus M Solid-state Nuclear Magnetic Resonance (NMR) provides a general method to study molecular structure and dynamics in a non-crystalline and insoluble environment. We discuss the latest methodological progress to...	nmrlearner	Journal club	0	11-25-2010 08:21 PM
[NMR paper] Sampling of protein dynamics in nanosecond time scale by 15N NMR relaxation and self- Sampling of protein dynamics in nanosecond time scale by 15N NMR relaxation and self-diffusion measurements. Related Articles Sampling of protein dynamics in nanosecond time scale by 15N NMR relaxation and self-diffusion measurements. J Biomol Struct Dyn. 1999 Aug;17(1):157-74 Authors: Orekhov VY, Korzhnev DM, Pervushin KV, Hoffmann E, Arseniev AS This paper presents a procedure for detection of intermediate nanosecond internal dynamics in globular proteins. The procedure uses 1H-15N relaxation measurements at several spectrometer frequencies...	nmrlearner	Journal club	0	11-18-2010 08:31 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