NMR paper NMR Studies of the Ion Channel-Forming Human Amyloid-beta with Zinc Ion Concentrations

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[NMR paper] NMR Studies of the Ion Channel-Forming Human Amyloid-beta with Zinc Ion Concentrations

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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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11-27-2021, 10:43 PM

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NMR Studies of the Ion Channel-Forming Human Amyloid-beta with Zinc Ion Concentrations

NMR Studies of the Ion Channel-Forming Human Amyloid-beta with Zinc Ion Concentrations

Alzheimer's disease (AD) is classified as an amyloid-related disease. Amyloid beta (A?) is a transmembrane protein known to play a major role in the pathogenesis of AD. These A? proteins can form ion channels or pores in the cell membrane. Studies have elucidated the structure of the transmembrane domain of A? ion channels. In addition, various studies have investigated substances that block or inhibit the formation of A? ion channels. Zinc ions are considered as potential inhibitors of AD. In...

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