NMR paper Synthesis of uniformly deuterated n-dodecyl-?-D-maltoside (d39 -DDM) for solubilization of membrane proteins in TROSY NMR experiments.

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[NMR paper] Synthesis of uniformly deuterated n-dodecyl-?-D-maltoside (d39 -DDM) for solubilization of membrane proteins in TROSY NMR experiments.

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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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12-11-2014, 11:22 PM

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Synthesis of uniformly deuterated n-dodecyl-?-D-maltoside (d39 -DDM) for solubilization of membrane proteins in TROSY NMR experiments.

Synthesis of uniformly deuterated n-dodecyl-?-D-maltoside (d39 -DDM) for solubilization of membrane proteins in TROSY NMR experiments.

Related Articles Synthesis of uniformly deuterated n-dodecyl-?-D-maltoside (d39 -DDM) for solubilization of membrane proteins in TROSY NMR experiments.

J Labelled Comp Radiopharm. 2014 Dec 9;

Authors: Hiruma-Shimizu K, Kalverda AP, Henderson PJ, Homans SW, Patching SG

Abstract
This work reports the first synthesis of uniformly deuterated n-dodecyl-?-D-maltoside (d39 -DDM). DDM is a mild non-ionic detergent often used in the extraction and purification of membrane proteins and for solubilizing them in experimental studies of their structure, dynamics and binding of ligands. We required d39 -DDM for solubilizing large ?-helical membrane proteins in samples for [(15) N-(1) H]TROSY (transverse relaxation-optimized spectroscopy) NMR experiments to achieve the highest sensitivity and best resolved spectra possible. Our synthesis of d39 -DDM used d7 -D-glucose and d25 -n-dodecanol to introduce deuterium labelling into both the maltoside and dodecyl moieties, respectively. Two glucose molecules, one converted to a glycosyl acceptor with a free C4 hydroxyl group and one converted to a glycosyl donor substituted at C1 with a bromine in the ?-configuration, were coupled together with an ?(1 -> 4) glycosidic bond to give maltose, which was then coupled with n-dodecanol by its substitution of a C1 bromine in the ?-configuration to give DDM. (1) H NMR spectra were used to confirm a high level of deuteration in the synthesized d39 -DDM and to demonstrate its use in eliminating interfering signals from TROSY NMR spectra of a 52-kDa sugar transport protein solubilized in DDM.

PMID: 25491565 [PubMed - as supplied by publisher]

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