Demonstration of Positionally Disordered Water Within a Protein Hydrophobic Cavity by NMR - Science

		BioNMR > NMR community > Online News
Demonstration of Positionally Disordered Water Within a Protein Hydrophobic Cavity by NMR - Science

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

10-11-2024, 02:56 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,732

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

Demonstration of Positionally Disordered Water Within a Protein Hydrophobic Cavity by NMR - Science

Demonstration of Positionally Disordered Water Within a Protein Hydrophobic Cavity by NMR - Science

Demonstration of Positionally Disordered Water Within a Protein Hydrophobic Cavity by NMR Science Read here

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[ASAP] Hydrophobic Collapse of Ubiquitin Generates Rapid Protein–Water Motions Hydrophobic Collapse of Ubiquitin Generates Rapid Protein–Water Motions https://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.8b00235/20180601/images/medium/bi-2018-00235t_0008.gif Biochemistry DOI: 10.1021/acs.biochem.8b00235 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/HzJ6eGhx04k More...	nmrlearner	Journal club	0	06-11-2018 07:38 PM
Structures of the reduced and oxidized state of the mutant D24A of yeast thioredoxin 1: insights into the mechanism for the closing of the water cavity Structures of the reduced and oxidized state of the mutant D24A of yeast thioredoxin 1: insights into the mechanism for the closing of the water cavity Source: Journal of Biomolecular NMR	nmrlearner	Journal club	0	10-21-2015 12:49 PM
[NMR paper] Cavity as a Source of Conformational Fluctuation and High-Energy State: High-Pressure NMR Study of a Cavity-Enlarged Mutant of T4Lysozyme. Cavity as a Source of Conformational Fluctuation and High-Energy State: High-Pressure NMR Study of a Cavity-Enlarged Mutant of T4Lysozyme. Cavity as a Source of Conformational Fluctuation and High-Energy State: High-Pressure NMR Study of a Cavity-Enlarged Mutant of T4Lysozyme. Biophys J. 2015 Jan 6;108(1):133-145 Authors: Maeno A, Sindhikara D, Hirata F, Otten R, Dahlquist FW, Yokoyama S, Akasaka K, Mulder FA, Kitahara R Abstract Although the structure, function, conformational dynamics, and controlled thermodynamics of proteins...	nmrlearner	Journal club	0	01-08-2015 01:29 PM
[NMR paper] Dynamics of xenon binding inside the hydrophobic cavity of pseudo-wild-type bacteriophage T4 lysozyme explored through xenon-based NMR spectroscopy. Dynamics of xenon binding inside the hydrophobic cavity of pseudo-wild-type bacteriophage T4 lysozyme explored through xenon-based NMR spectroscopy. Related Articles Dynamics of xenon binding inside the hydrophobic cavity of pseudo-wild-type bacteriophage T4 lysozyme explored through xenon-based NMR spectroscopy. J Am Chem Soc. 2005 Aug 24;127(33):11676-83 Authors: Desvaux H, Dubois L, Huber G, Quillin ML, Berthault P, Matthews BW Wild-type bacteriophage T4 lysozyme contains a hydrophobic cavity with binding properties that have been...	nmrlearner	Journal club	0	12-01-2010 06:56 PM
[NMR paper] Probing the hydrophobic cavity of lipid transfer protein from Nicotiana tabacum throu Probing the hydrophobic cavity of lipid transfer protein from Nicotiana tabacum through xenon-based NMR spectroscopy. Related Articles Probing the hydrophobic cavity of lipid transfer protein from Nicotiana tabacum through xenon-based NMR spectroscopy. J Am Chem Soc. 2004 Dec 8;126(48):15738-46 Authors: Dubois L, Da Silva P, Landon C, Huber JG, Ponchet M, Vovelle F, Berthault P, Desvaux H The hydrophobic cavity of Lipid Transfer Protein 1 from Nicotiana tabacum is investigated in detail by NMR using xenon as a spy. The analysis of the (129)Xe...	nmrlearner	Journal club	0	11-24-2010 10:03 PM
[NMR paper] NMR identification of hydrophobic cavities with low water occupancies in protein stru NMR identification of hydrophobic cavities with low water occupancies in protein structures using small gas molecules. Related Articles NMR identification of hydrophobic cavities with low water occupancies in protein structures using small gas molecules. Nat Struct Biol. 1997 May;4(5):396-404 Authors: Otting G, Liepinsh E, Halle B, Frey U Magnetization transfer through dipole-dipole interactions (nuclear Overhauser effects, NOEs) between water protons and the protons lining two small hydrophobic cavities in hen egg-white lysozyme demonstrates...	nmrlearner	Journal club	0	08-22-2010 03:31 PM
[NMR paper] NMR identification of hydrophobic cavities with low water occupancies in protein stru NMR identification of hydrophobic cavities with low water occupancies in protein structures using small gas molecules. Related Articles NMR identification of hydrophobic cavities with low water occupancies in protein structures using small gas molecules. Nat Struct Biol. 1997 May;4(5):396-404 Authors: Otting G, Liepinsh E, Halle B, Frey U Magnetization transfer through dipole-dipole interactions (nuclear Overhauser effects, NOEs) between water protons and the protons lining two small hydrophobic cavities in hen egg-white lysozyme demonstrates...	nmrlearner	Journal club	0	08-22-2010 03:03 PM
[NMR paper] Demonstration of positionally disordered water within a protein hydrophobic cavity by Demonstration of positionally disordered water within a protein hydrophobic cavity by NMR. Related Articles Demonstration of positionally disordered water within a protein hydrophobic cavity by NMR. Science. 1995 Mar 24;267(5205):1813-7 Authors: Ernst JA, Clubb RT, Zhou HX, Gronenborn AM, Clore GM The presence and location of water of hydration (that is, bound water) in the solution structure of human interleukin-1 beta (hIL-1 beta) was investigated with water-selective two-dimensional heteronuclear magnetic resonance spectroscopy. It is shown...	nmrlearner	Journal club	0	08-22-2010 03:41 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