NMR studies of large proteins

		BioNMR > Educational resources > Journal club
NMR studies of large proteins

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

07-18-2017, 07:52 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

NMR studies of large proteins

NMR studies of large proteins

Publication date: Available online 17 July 2017
Source:Journal of Molecular Biology

Author(s): Yajun Jiang, Charalampos G. Kalodimos

Recent breakthroughs in isotope-labeling and pulse sequence techniques have enabled the Nuclear Magnetic Resonance (NMR) characterization of large protein systems with molecular weights of hundreds of kDa. NMR studies of a great variety of large proteins have provided unique insights into the binding, dynamic, and allosteric mechanisms. Here we present a brief summary of these developments by highlighting few cases that exemplify the uniqueness of NMR in providing atomic-resolution information into key dynamic processes and structures of protein complexes with high degree of flexibility.
Graphical abstract

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR paper] Methyl-specific isotopic labeling: a molecular tool box for solution NMR studies of large proteins. Methyl-specific isotopic labeling: a molecular tool box for solution NMR studies of large proteins. Related Articles Methyl-specific isotopic labeling: a molecular tool box for solution NMR studies of large proteins. Curr Opin Struct Biol. 2015 Apr 13;32:113-122 Authors: Kerfah R, Plevin MJ, Sounier R, Gans P, Boisbouvier J Abstract Nuclear magnetic resonance (NMR) spectroscopy is a uniquely powerful tool for studying the structure, dynamics and interactions of biomolecules at atomic resolution. In the past 15 years, the...	nmrlearner	Journal club	0	04-17-2015 08:49 PM
Methyl-specific isotopic labeling: a molecular tool box for solution NMR studies of large proteins Methyl-specific isotopic labeling: a molecular tool box for solution NMR studies of large proteins Publication date: June 2015 Source:Current Opinion in Structural Biology, Volume 32</br> Author(s): Rime Kerfah , Michael J Plevin , Remy Sounier , Pierre Gans , Jerome Boisbouvier</br> Nuclear magnetic resonance (NMR) spectroscopy is a uniquely powerful tool for studying the structure, dynamics and interactions of biomolecules at atomic resolution. In the past 15 years, the development of new isotopic labeling strategies has opened the possibility of exploiting...	nmrlearner	Journal club	0	04-14-2015 01:24 PM
[NMR paper] NMR methods for structural studies of large monomeric and multimeric proteins. NMR methods for structural studies of large monomeric and multimeric proteins. Related Articles NMR methods for structural studies of large monomeric and multimeric proteins. Curr Opin Struct Biol. 2013 Jul 11; Authors: Frueh DP, Goodrich AC, Mishra SH, Nichols SR Abstract NMR structural studies of large monomeric and multimeric proteins face distinct challenges. In large monomeric proteins, the common occurrence of frequency degeneracies between residues impedes unambiguous assignment of NMR signals. To overcome this barrier, nonuniform...	nmrlearner	Journal club	0	07-16-2013 09:04 PM
NMR methods for structural studies of large monomeric and multimeric proteins NMR methods for structural studies of large monomeric and multimeric proteins Publication date: Available online 11 July 2013 Source:Current Opinion in Structural Biology</br> Author(s): Dominique P Frueh , Andrew C Goodrich , Subrata H Mishra , Scott R Nichols</br> NMR structural studies of large monomeric and multimeric proteins face distinct challenges. In large monomeric proteins, the common occurrence of frequency degeneracies between residues impedes unambiguous assignment of NMR signals. To overcome this barrier, nonuniform sampling (NUS) is used to...	nmrlearner	Journal club	0	07-12-2013 04:06 AM
Automated NMR Resonance Assignment of Large Proteins for Protein-Ligand Interaction Studies. Automated NMR Resonance Assignment of Large Proteins for Protein-Ligand Interaction Studies. Automated NMR Resonance Assignment of Large Proteins for Protein-Ligand Interaction Studies. J Am Chem Soc. 2010 Dec 16; Authors: Gossert AD, Hiller S, Ferna?ndez C The detection and structural characterization of protein-ligand interactions by solution NMR is central to functional biology research as well as to drug discovery. Here we present a robust and highly automated procedure for obtaining the resonance assignments necessary for studies of such...	nmrlearner	Journal club	0	12-18-2010 12:00 PM
Automated NMR Resonance Assignment of Large Proteins for Protein-Ligand Interaction Studies Automated NMR Resonance Assignment of Large Proteins for Protein-Ligand Interaction Studies Alvar D. Gossert, Sebastian Hiller and Ce?sar Ferna?ndez http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/ja108383x/aop/images/medium/ja-2010-08383x_0004.gif Journal of the American Chemical Society DOI: 10.1021/ja108383x http://feeds.feedburner.com/~ff/acs/jacsat?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/jacsat/~4/E3PMYeBSCeE	nmrlearner	Journal club	0	12-17-2010 12:50 AM
[NMR paper] Chain-selective isotopic labeling for NMR studies of large multimeric proteins: appli Chain-selective isotopic labeling for NMR studies of large multimeric proteins: application to hemoglobin. Related Articles Chain-selective isotopic labeling for NMR studies of large multimeric proteins: application to hemoglobin. Biophys J. 2000 Aug;79(2):1146-54 Authors: Simplaceanu V, Lukin JA, Fang TY, Zou M, Ho NT, Ho C Multidimensional, multinuclear NMR has the potential to elucidate the mechanisms of allostery and cooperativity in multimeric proteins under near-physiological conditions. However, NMR studies of proteins made up of...	nmrlearner	Journal club	0	11-19-2010 08:29 PM
[NMR paper] Characterizing the use of perdeuteration in NMR studies of large proteins: 13C, 15N a Characterizing the use of perdeuteration in NMR studies of large proteins: 13C, 15N and 1H assignments of human carbonic anhydrase II. http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Characterizing the use of perdeuteration in NMR studies of large proteins: 13C, 15N and 1H assignments of human carbonic anhydrase II. J Mol Biol. 1996 Dec 20;264(5):1101-16 Authors: Venters RA, Farmer BT, Fierke CA, Spicer LD Perdeuteration of all non-exchangeable proton sites can...	nmrlearner	Journal club	0	08-22-2010 02:20 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