Cotten, Baxter '11 and McGavin '12 Publish in Biophysical Journal - Hamilton College News

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Cotten, Baxter '11 and McGavin '12 Publish in Biophysical Journal - Hamilton College News

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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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09-16-2011, 10:01 AM

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Cotten, Baxter '11 and McGavin '12 Publish in Biophysical Journal - Hamilton College News

Hamilton College News

Cotten, Baxter '11 and McGavin '12 Publish in Biophysical Journal
Hamilton College News
In the summer of 2010, Baxter and McGavin spent 10 days working at Opella's laboratory, the Center for Nuclear Magnetic Resonance (NMR) Spectroscopy and Imaging of Proteins at UCSD. There they learned how to make bicelles (â??bilayered micellesâ??), ...

Cotten, Baxter '11 and McGavin '12 Publish in Biophysical Journal - Hamilton College News
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