Review of Methods to Assign the NMR Peaks of Reductively Methylated Proteins

		BioNMR > Educational resources > Journal club
Review of Methods to Assign the NMR Peaks of Reductively Methylated 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

08-29-2014, 05:36 PM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,733

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

Review of Methods to Assign the NMR Peaks of Reductively Methylated Proteins

Review of Methods to Assign the NMR Peaks of Reductively Methylated Proteins

Publication date: Available online 28 August 2014
Source:Analytical Biochemistry

Author(s): Kevin J. Roberson , Megan A. Macnaughtan

Reductive methylation of lysyl side-chain amines has been a successful tool in the advancement of high resolution structural biology. The utility of this method has continuously gained ground as a protein chemical modification; first, as a tool to aid protein crystallization and later, as a probe in protein nuclear magnetic resonance (NMR) spectroscopy. As an isotope-labeling strategy for NMR studies, reductive methylation has contributed to the study of protein-protein interactions and global conformational changes. While more detailed structural studies using this labeling strategy are possible, the hurdle of assigning the NMR peaks to the corresponding reductively methylated amine hinders its use. In this review, we discuss and compare strategies used to assign the NMR peaks of reductively methylated protein-amines.

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR paper] Methods to Identify the NMR Resonances of the 13C-Dimethyl N-terminal Amine on Reductively Methylated Proteins. Methods to Identify the NMR Resonances of the 13C-Dimethyl N-terminal Amine on Reductively Methylated Proteins. Related Articles Methods to Identify the NMR Resonances of the 13C-Dimethyl N-terminal Amine on Reductively Methylated Proteins. J Vis Exp. 2013;(82) Authors: Roberson KJ, Brady PN, Sweeney MM, Macnaughtan MA Abstract Nuclear magnetic resonance (NMR) spectroscopy is a proven technique for protein structure and dynamic studies. To study proteins with NMR, stable magnetic isotopes are typically incorporated metabolically to...	nmrlearner	Journal club	0	01-01-2014 03:05 PM
Using NMR spectroscopic methods to determine enantiomeric purity and assign absolute stereochemistry Using NMR spectroscopic methods to determine enantiomeric purity and assign absolute stereochemistry July 2011 Publication year: 2011 Source:Progress in Nuclear Magnetic Resonance Spectroscopy, Volume 59, Issue 1</br> </br> </br> </br></br>	nmrlearner	Journal club	0	12-15-2012 09:51 AM
Using NMR spectroscopic methods to determine enantiomeric purity and assign absolute stereochemistry Using NMR spectroscopic methods to determine enantiomeric purity and assign absolute stereochemistry July 2011 Publication year: 2011 Source:Progress in Nuclear Magnetic Resonance Spectroscopy, Volume 59, Issue 1</br> </br> </br> </br></br>	nmrlearner	Journal club	0	12-01-2012 06:10 PM
Using NMR spectroscopic methods to determine enantiomeric purity and assign absolute stereochemistry Using NMR spectroscopic methods to determine enantiomeric purity and assign absolute stereochemistry Publication year: 2011 Source:Progress in Nuclear Magnetic Resonance Spectroscopy, Volume 59, Issue 1</br> Thomas J. Wenzel, Cora D. Chisholm</br> </br> </br></br>	nmrlearner	Journal club	0	03-09-2012 09:16 AM
[NMR900 blog] Review in Nature Methods Review in Nature Methods J.R. Bothe, E.N. Nikolova, C.D. Eichhorn, J. Chugh, A.L. Hansen and H.M. Al-Hashimi, "Characterizing RNA dynamics at atomic resolution using solution-state NMR spectroscopy," Nature Methods 8 (2011) 919–931. (Review) http://dx.doi.org/10.1038/nmeth.1735 https://blogger.googleusercontent.com/tracker/8663203727601106205-1377108512543150595?l=nmr900.blogspot.com Read complete story on NMR900 blog	nmrlearner	News from NMR blogs	0	11-02-2011 02:14 AM
ncIDP-assign: A SPARKY extension for the effective NMR assignment of intrinsically disordered proteins. ncIDP-assign: A SPARKY extension for the effective NMR assignment of intrinsically disordered proteins. ncIDP-assign: A SPARKY extension for the effective NMR assignment of intrinsically disordered proteins. Bioinformatics. 2011 Mar 3; Authors: Tamiola K, Mulder FA SUMMARY: We describe here the ncIDP-assign extension for the popular NMR assignment programme SPARKY, which aids in the sequence-specific resonance assignment of intrinsically disordered proteins (IDPs). The assignment plugin greatly facilitates the effective matching of a set of...	nmrlearner	Journal club	0	03-05-2011 01:02 PM
Using NMR Spectroscopic Methods to Determine Enantiomeric Purity and Assign Absolute Using NMR Spectroscopic Methods to Determine Enantiomeric Purity and Assign Absolute Stereochemistry Publication year: 2010 Source: Progress in Nuclear Magnetic Resonance Spectroscopy, In Press, Accepted Manuscript, Available online 2 August 2010</br> Thomas J., Wenzel , Cora D., Chisholm</br> More...	nmrlearner	Journal club	0	08-16-2010 03:50 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