NMR paper Present and future of NMR for RNA-protein complexes: A perspective of integrated structural biology.

		BioNMR > Educational resources > Journal club
[NMR paper] Present and future of NMR for RNA-protein complexes: A perspective of integrated structural biology.

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

03-25-2014, 11:49 AM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,175

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

Present and future of NMR for RNA-protein complexes: A perspective of integrated structural biology.

Present and future of NMR for RNA-protein complexes: A perspective of integrated structural biology.

Related Articles Present and future of NMR for RNA-protein complexes: A perspective of integrated structural biology.

J Magn Reson. 2014 Apr;241:126-36

Authors: Carlomagno T

Abstract
Nucleic acids are gaining enormous importance as key molecules in almost all biological processes. Most nucleic acids do not act in isolation but are generally associated with proteins to form high-molecular-weight nucleoprotein complexes. In this perspective article I focus on the structural studies of supra-molecular ribonucleoprotein (RNP) assemblies in solution by a combination of state-of-the-art TROSY-based NMR experiments and other structural biology techniques. I discuss ways how to combine sparse NMR data with low-resolution structural information from small-angle scattering, fluorescence and electron paramagnetic resonance spectroscopy to obtain the structure of large RNP particles by an integrated structural biology approach. In the last section I give a perspective for the study of RNP complexes by solid-state NMR.

PMID: 24656085 [PubMed - in process]

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR paper] Chemical exchange in biomacromolecules: Past, present, and future Chemical exchange in biomacromolecules: Past, present, and future Publication date: April 2014 Source:Journal of Magnetic Resonance, Volume 241</br> Author(s): Arthur G. Palmer III</br> The perspective reviews quantitative investigations of chemical exchange phenomena in proteins and other biological macromolecules using NMR spectroscopy, particularly relaxation dispersion methods. The emphasis is on techniques and applications that quantify the populations, interconversion kinetics, and structural features of sparsely populated conformational states in equilibrium...	nmrlearner	Journal club	0	03-22-2014 01:28 AM
Present and future of NMR for RNA–protein complexes: A perspective of integrated structural biology Present and future of NMR for RNA–protein complexes: A perspective of integrated structural biology Publication date: April 2014 Source:Journal of Magnetic Resonance, Volume 241</br> Author(s): Teresa Carlomagno</br> Nucleic acids are gaining enormous importance as key molecules in almost all biological processes. Most nucleic acids do not act in isolation but are generally associated with proteins to form high-molecular-weight nucleoprotein complexes. In this perspective article I focus on the structural studies of supra-molecular ribonucleoprotein (RNP) assemblies...	nmrlearner	Journal club	0	03-21-2014 12:52 AM
Rice University Researchers' New Integrated Approach Predicts Structural ... - BioNews Texas <img alt="" height="1" width="1" /> Rice University Researchers' New Integrated Approach Predicts Structural ... BioNews Texas The most common methods for protein structural analysis currently are X-ray crystallography and nuclear magnetic resonance spectroscopy (NMR), however, these do not provide information about how proteins change their forms from native to functional ... Rice University Researchers' New Integrated Approach Predicts Structural ... - BioNews Texas More...	nmrlearner	Online News	0	12-09-2013 03:29 PM
[NMR paper] Solution NMR structures provide first structural coverage of the large protein domain family PF08369 and complementary structural coverage of dark operative protochlorophyllide oxidoreductase complexes. Solution NMR structures provide first structural coverage of the large protein domain family PF08369 and complementary structural coverage of dark operative protochlorophyllide oxidoreductase complexes. Solution NMR structures provide first structural coverage of the large protein domain family PF08369 and complementary structural coverage of dark operative protochlorophyllide oxidoreductase complexes. J Struct Funct Genomics. 2013 Aug 21; Authors: Pulavarti SV, He Y, Feldmann EA, Eletsky A, Acton TB, Xiao R, Everett JK, Montelione GT, Kennedy MA, Szyperski...	nmrlearner	Journal club	0	08-23-2013 01:07 AM
[NMR paper] The present and future of solution NMR in investigating the structure and dynamics of channels and transporters. The present and future of solution NMR in investigating the structure and dynamics of channels and transporters. The present and future of solution NMR in investigating the structure and dynamics of channels and transporters. Curr Opin Struct Biol. 2013 Apr 26; Authors: Oxenoid K, Chou JJ Abstract Membrane channels, transporters and receptors constitute essential means for cells to maintain homeostasis and communicate with the surroundings. Investigation of their molecular architecture and the dynamic process of transporting substrate or...	nmrlearner	Journal club	0	05-01-2013 11:46 AM
NMR Structural Biology and Biophysics of Protein:Protein Complexes, National Cancer Institute, Frederick, MD, United States NMR Structural Biology and Biophysics of Protein:Protein Complexes, National Cancer Institute, Frederick, MD, United States Postdoctoral positions are available in the Macromolecular NMR section of the Structural Biophysics Laboratory headed by Dr. R. Andrew Byrd at the National Cancer Institute. The Byrd lab combines NMR structural biology & Small Angle Xray Scattering (... More...	nmrlearner	Job marketplace	0	11-15-2011 11:36 PM
[NMR paper] Protein NMR extends into new fields of structural biology. Protein NMR extends into new fields of structural biology. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Protein NMR extends into new fields of structural biology. Curr Opin Chem Biol. 1997 Oct;1(3):359-64 Authors: Cooke RM Advances in protein NMR have opened new doors for the understanding of macromolecular structure and interactions. Isotope-labelling approaches have extended the size limit for structure determination, the mapping of protein-ligand interactions is...	nmrlearner	Journal club	0	08-22-2010 05:08 PM
Structural Biology Scores With Protein Snapshot Structural Biology Scores With Protein Snapshot (July 12, 2009) -- Investigators have used nuclear magnetic resonance methods to determine the structure of the largest membrane-spanning protein to date. The group's ability to determine the NMR structure of the bacterial protein diacylglycerol kinase, reported in the journal Science, suggests that similar methods can now be used to study the stru More...	nmrlearner	Online News	0	08-19-2010 01:47 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