NMR paper An Integrated Approach to Unique NMR Assignment of Methionine Methyl Resonances in Proteins.

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[NMR paper] An Integrated Approach to Unique NMR Assignment of Methionine Methyl Resonances in Proteins.

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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:

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An Integrated Approach to Unique NMR Assignment of Methionine Methyl Resonances in Proteins.

An Integrated Approach to Unique NMR Assignment of Methionine Methyl Resonances in Proteins.

Related Articles An Integrated Approach to Unique NMR Assignment of Methionine Methyl Resonances in Proteins.

Anal Chem. 2017 Feb 07;89(3):1610-1616

Authors: Yu F, Qiao J, Robblee J, Tsao D, Anderson J, Capila I

Abstract
The application of methyl nuclear magnetic resonance (NMR) spectroscopy in protein side-chain structural studies offers unique advantages of greater peak sensitivity, even for high-molecular-weight proteins. Traditionally, the utility of methyl NMR has often been limited by the difficulty in assigning the methyl resonances. Herein, a mass spectrometry (MS)-assisted strategy to assign the methyl resonances of methionine residues is presented. The strategy involves partially oxidizing the methionine and quantifying the oxidation level by both NMR and liquid chromatography-mass spectrometry (LC-MS). The NMR assignment of methyl resonances of methionine is made by correlating the quantitative results obtained from both NMR and MS. The method has been successfully demonstrated using the proteins hen egg-white lysozyme (HEWL) and porcine pepsin. The technique described herein can help facilitate the application of methyl NMR as a useful tool to study protein structure, dynamics, and interactions.

PMID: 28208280 [PubMed - in process]

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