ImprovedAccuracy from Joint X-ray and NMRRefinement of a Protein–RNA Complex Structure

		BioNMR > Educational resources > Journal club
ImprovedAccuracy from Joint X-ray and NMRRefinement of a Protein–RNA Complex Structure

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

01-30-2016, 07:56 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

ImprovedAccuracy from Joint X-ray and NMRRefinement of a Protein–RNA Complex Structure

ImprovedAccuracy from Joint X-ray and NMRRefinement of a Protein–RNA Complex Structure

Azzurra Carlon, Enrico Ravera, Janosch Hennig, Giacomo Parigi, Michael Sattler and Claudio Luchinat

Journal of the American Chemical Society
DOI: 10.1021/jacs.5b11598

Source: Journal of the American Chemical Society

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR paper] Improved accuracy from joint X-ray and NMR refinement of a protein-RNA complex structure. Improved accuracy from joint X-ray and NMR refinement of a protein-RNA complex structure. Improved accuracy from joint X-ray and NMR refinement of a protein-RNA complex structure. J Am Chem Soc. 2016 Jan 13; Authors: Carlon A, Ravera E, Hennig J, Parigi G, Sattler M, Luchinat C Abstract Integrated experimental approaches play an increasingly important role in structural biology, taking advantage of the complementary information provided by different techniques. In particular, the combination of NMR data with X-ray diffraction...	nmrlearner	Journal club	0	01-14-2016 11:53 PM
New Joint NMR / X-ray repository for protein structures - spectroscopyNOW.com (blog) New Joint NMR / X-ray repository for protein structures - spectroscopyNOW.com (blog) <img alt="" height="1" width="1"> New Joint NMR / X-ray repository for protein structures spectroscopyNOW.com (blog) A repository for the NMR and X-ray crystallographic data of proteins has been established as part of the NIH Protein Structure Initiative, aimed at testing new protein structure algorithms and realising the full potential of NMR spectroscopy in this area. and more » Read here	nmrlearner	Online News	0	09-24-2015 12:46 AM
New Joint NMR / X-ray depository for protein structures - spectroscopyNOW.com (blog) New Joint NMR / X-ray depository for protein structures - spectroscopyNOW.com (blog) <img alt="" height="1" width="1"> New Joint NMR / X-ray depository for protein structures spectroscopyNOW.com (blog) A repository for the NMR and X-ray crystallographic data of proteins has been established as part of the NIH Protein Structure Initiative, aimed at testing new protein structure algorithms and realising the full potential of NMR spectroscopy in this area. Read here	nmrlearner	Online News	0	09-24-2015 12:46 AM
New Joint NMR / X-ray repository for protein structures New Joint NMR / X-ray repository for protein structures http://www.spectroscopynow.com/common/images/thumbnails/14ff9fc36fe.jpgA repository for the NMR and X-ray crystallographic data of proteins has been established as part of the NIH Protein Structure Initiative, aimed at testing new protein structure algorithms. More...	nmrlearner	News from NMR blogs	0	09-24-2015 12:46 AM
New Joint NMR / X-ray repository for protein structures - spectroscopyNOW.com (blog) New Joint NMR / X-ray repository for protein structures - spectroscopyNOW.com (blog) <img alt="" height="1" width="1"> New Joint NMR / X-ray repository for protein structures spectroscopyNOW.com (blog) A repository for the NMR and X-ray crystallographic data of proteins has been established as part of the NIH Protein Structure Initiative, aimed at testing new protein structure algorithms and realising the full potential of NMR spectroscopy in this area. Read here	nmrlearner	Online News	0	09-23-2015 11:52 AM
High-resolution membrane protein structure by joint calculations with solid-state NMR and X-ray experimental data High-resolution membrane protein structure by joint calculations with solid-state NMR and X-ray experimental data Abstract X-ray diffraction and nuclear magnetic resonance spectroscopy (NMR) are the staple methods for revealing atomic structures of proteins. Since crystals of biomolecular assemblies and membrane proteins often diffract weakly and such large systems encroach upon the molecular tumbling limit of solution NMR, new methods are essential to extend structures of such systems to high resolution. Here we present a method that incorporates solid-state NMR restraints alongside...	nmrlearner	Journal club	0	09-26-2011 06:42 AM
High-resolution membrane protein structure by joint calculations with solid-state NMR and X-ray experimental data. High-resolution membrane protein structure by joint calculations with solid-state NMR and X-ray experimental data. High-resolution membrane protein structure by joint calculations with solid-state NMR and X-ray experimental data. J Biomol NMR. 2011 Sep 22; Authors: Tang M, Sperling LJ, Berthold DA, Schwieters CD, Nesbitt AE, Nieuwkoop AJ, Gennis RB, Rienstra CM Abstract X-ray diffraction and nuclear magnetic resonance spectroscopy (NMR) are the staple methods for revealing atomic structures of proteins. Since crystals of biomolecular...	nmrlearner	Journal club	0	09-23-2011 05:30 PM
[NMR paper] Joint X-ray and NMR refinement of the yeast L30e-mRNA complex. Joint X-ray and NMR refinement of the yeast L30e-mRNA complex. Related Articles Joint X-ray and NMR refinement of the yeast L30e-mRNA complex. Structure. 2004 Jul;12(7):1165-76 Authors: Chao JA, Williamson JR L30e, a Saccharomyces cervisiae ribosomal protein, regulates its own expression by binding to a purine-rich asymmetric internal loop located in both its pre-mRNA and mature mRNA. A crystal structure of an MBP-L30e fusion protein in complex with an RNA containing the pre-mRNA regulatory site was solved at 3.24 A. Interestingly, the...	nmrlearner	Journal club	0	11-24-2010 09:51 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