Exploring NMR ensembles of calcium binding proteins: perspectives to design ... - 7thSpace Interactive (press release)

		BioNMR > NMR community > Online News
Exploring NMR ensembles of calcium binding proteins: perspectives to design ... - 7thSpace Interactive (press release)

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

05-13-2011, 07:41 AM

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

Exploring NMR ensembles of calcium binding proteins: perspectives to design ... - 7thSpace Interactive (press release)

Exploring NMR ensembles of calcium binding proteins: perspectives to design ... - 7thSpace Interactive (press release)

Exploring NMR ensembles of calcium binding proteins: perspectives to design ...
7thSpace Interactive (press release)
We employed several scoring methods in order to find the best protein conformations. Our results show that docking on NMR structures of calmodulin and centrin can be very helpful to take into account conformational changes occurring at protein-protein ...

Read here

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
New technique enables study of â??Ã?Ã²challengingâ??Ã?Ã´ proteins - PharmiWeb.com (press release) New technique enables study of â??Ã?Ã²challengingâ??Ã?Ã´ proteins - PharmiWeb.com (press release) <img alt="" height="1" width="1" /> New technique enables study of â??Ã?Ã²challengingâ??Ã?Ã´ proteins PharmiWeb.com (press release) The technique, an enhanced form of nuclear magnetic resonance (NMR) spectroscopy, could enable the structure of a protein to be identified within hours, rather than weeks or months, radically speeding up the process of drug discovery. ... and more » Read here	nmrlearner	Online News	0	11-16-2011 11:41 AM
Hydration studies on the archaeal protein Sso7d using NMR measurements and MD ... - 7thSpace Interactive (press release) Hydration studies on the archaeal protein Sso7d using NMR measurements and MD ... - 7thSpace Interactive (press release) <img alt="" height="1" width="1" /> Hydration studies on the archaeal protein Sso7d using NMR measurements and MD ... 7thSpace Interactive (press release) ... the hydration of the archaeal multifunctional protein Sso7d from Solfolobus solfataricus was investigated using a combination of computational and experimental data derived from molecular dynamics simulations and ePHOGSY NMR spectroscopy. ... Read here	nmrlearner	Online News	0	10-21-2011 10:04 PM
DARS-RNP and QUASI-RNP: New statistical potentials for protein-RNA docking - 7thSpace Interactive (press release) DARS-RNP and QUASI-RNP: New statistical potentials for protein-RNA docking - 7thSpace Interactive (press release) <img alt="" height="1" width="1" /> DARS-RNP and QUASI-RNP: New statistical potentials for protein-RNA docking 7thSpace Interactive (press release) Unfortunately, the experimental determination of protein-RNA complexes is tedious and difficult, both by X-ray crystallography and NMR. For many interacting proteins and RNAs the individual structures are available, enabling computational prediction of ... Read here	nmrlearner	Online News	0	08-19-2011 04:02 AM
Effect of ischemic preconditioning in skeletal muscle measured by functional ... - 7thSpace Interactive (press release) <img alt="" height="1" width="1" /> Effect of ischemic preconditioning in skeletal muscle measured by functional ... 7thSpace Interactive (press release) Nuclear magnetic resonance (NMR) imaging and spectroscopy have been applied to assess skeletal muscle oxidative metabolism. Therefore, in-vivo NMR may enable the characterization of ischemia-reperfusion injury. The goal of this study was to evaluate ... Protein NMR Spectroscopy: Practical Techniques and ApplicationsspectroscopyNOW.com all 2 news articles » Effect of ischemic preconditioning in skeletal muscle measured by...	nmrlearner	Online News	0	07-26-2011 11:22 PM
Objective identification of residue ranges for the superposition of protein ... - 7thSpace Interactive (press release) Objective identification of residue ranges for the superposition of protein ... - 7thSpace Interactive (press release) <img alt="" height="1" width="1" /> Objective identification of residue ranges for the superposition of protein ... 7thSpace Interactive (press release) Results: We present an automated and objective method for finding amino acid residue ranges for the superposition and analysis of protein structures, in particular for structure bundles resulting from NMR structure calculations. ... Read here	nmrlearner	Online News	0	05-18-2011 08:51 PM
Exploring NMR ensembles of calcium binding proteins: perspectives to design inhibitors of protein-protein interactions. Exploring NMR ensembles of calcium binding proteins: perspectives to design inhibitors of protein-protein interactions. Exploring NMR ensembles of calcium binding proteins: perspectives to design inhibitors of protein-protein interactions. BMC Struct Biol. 2011 May 12;11(1):24 Authors: Isvoran A, Badel A, Craescu CT, Miron S, Miteva MA ABSTRACT: BACKGROUND: Disrupting protein-protein interactions by small organic molecules is nowadays a promising strategy employed to block protein targets involved in different pathologies. However, structural...	nmrlearner	Journal club	0	05-17-2011 06:21 PM
Searching the protein structure database for ligand-binding site similarities ... - 7thSpace Interactive (press release) Searching the protein structure database for ligand-binding site similarities ... - 7thSpace Interactive (press release) <img alt="" height="1" width="1" /> Searching the protein structure database for ligand-binding site similarities ... 7thSpace Interactive (press release) CPASS is an important component of our Functional Annotation Screening Technology by NMR (FAST-NMR) protocol and has been successfully applied to aid the ... Read here	nmrlearner	Online News	0	01-27-2011 04:31 AM
[NMR paper] Exploring the calcium-binding site in photosystem II membranes by solid-state (113)Cd Exploring the calcium-binding site in photosystem II membranes by solid-state (113)Cd NMR. Related Articles Exploring the calcium-binding site in photosystem II membranes by solid-state (113)Cd NMR. Biochemistry. 2000 Jun 13;39(23):6751-5 Authors: Matysik J, Alia A, Nachtegaal G, van Gorkom HJ, Hoff AJ, de Groot HJ Calcium (Ca(2+)) is an essential cofactor for photosynthetic oxygen evolution. Although the involvement of Ca(2+) at the oxidizing side of photosystem II of plants has been known for a long time, its ligand interactions and mode of...	nmrlearner	Journal club	0	11-18-2010 09:15 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