NMR paper Chemical proteomic profiling of protein 4'-phosphopantetheinylation in mammalian cells

		BioNMR > Educational resources > Journal club
[NMR paper] Chemical proteomic profiling of protein 4'-phosphopantetheinylation in mammalian cells

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

06-16-2020, 01:36 AM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,732

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

Chemical proteomic profiling of protein 4'-phosphopantetheinylation in mammalian cells

Chemical proteomic profiling of protein 4'-phosphopantetheinylation in mammalian cells

Angewandte Chemie International Edition, Accepted Article.

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
[NMR paper] A Single Atom Change Facilitates the Membrane Transport of Green Fluorescent Proteins in Mammalian Cells A Single Atom Change Facilitates the Membrane Transport of Green Fluorescent Proteins in Mammalian Cells Angewandte Chemie International Edition, EarlyView. More...	nmrlearner	Journal club	0	05-09-2019 05:55 AM
[NMR paper] Spectral Comparisons of Mammalian Cells and Intact Organelles by Solid-State NMR. Spectral Comparisons of Mammalian Cells and Intact Organelles by Solid-State NMR. Related Articles Spectral Comparisons of Mammalian Cells and Intact Organelles by Solid-State NMR. J Struct Biol. 2018 May 30;: Authors: Werby SH, Cegelski L Abstract Whole-cell protein profiling, spatial localization, and quantification of activities such as gene transcription and protein translation are possible with modern biochemical and biophysical techniques. Yet, addressing questions of overall compositional changes within a cell - capturing...	nmrlearner	Journal club	0	06-03-2018 01:03 PM
[NMR paper] A Genetically Encoded ?-Lactamase Reporter for Ultrasensitive (129) Xe NMR in Mammalian Cells. A Genetically Encoded ?-Lactamase Reporter for Ultrasensitive (129) Xe NMR in Mammalian Cells. Related Articles A Genetically Encoded ?-Lactamase Reporter for Ultrasensitive (129) Xe NMR in Mammalian Cells. Angew Chem Int Ed Engl. 2016 Jun 15; Authors: Wang Y, Roose BW, Palovcak EJ, Carnevale V, Dmochowski IJ Abstract Molecular imaging holds considerable promise for elucidating biological processes in normal physiology as well as disease states, but requires noninvasive methods for identifying analytes at sub-micromolar...	nmrlearner	Journal club	0	06-16-2016 12:06 PM
[NMR paper] Characterization of proteins by in-cell NMR spectroscopy in cultured mammalian cells. Characterization of proteins by in-cell NMR spectroscopy in cultured mammalian cells. Characterization of proteins by in-cell NMR spectroscopy in cultured mammalian cells. Nat Protoc. 2016 Jun;11(6):1101-1111 Authors: Barbieri L, Luchinat E, Banci L Abstract	nmrlearner	Journal club	0	05-20-2016 03:04 PM
[NMR paper] Algal autolysate medium to label proteins for NMR in mammalian cells. Algal autolysate medium to label proteins for NMR in mammalian cells. Related Articles Algal autolysate medium to label proteins for NMR in mammalian cells. J Biomol NMR. 2016 Apr 22; Authors: Fuccio C, Luchinat E, Barbieri L, Neri S, Fragai M Abstract In-cell NMR provides structural and functional information on proteins directly inside living cells. At present, the high costs of the labeled media for mammalian cells represent a limiting factor for the development of this methodology. Here we report a protocol to prepare a...	nmrlearner	Journal club	0	04-24-2016 10:29 PM
Algal autolysate medium to label proteins for NMR in mammalian cells Algal autolysate medium to label proteins for NMR in mammalian cells Abstract In-cell NMR provides structural and functional information on proteins directly inside living cells. At present, the high costs of the labeled media for mammalian cells represent a limiting factor for the development of this methodology. Here we report a protocol to prepare a homemade growth medium from Spirulina platensis autolysate, suitable to express uniformly labeled proteins inside mammalian cells at a reduced cost-per-sample. The human proteins SOD1 and Mia40 were...	nmrlearner	Journal club	0	04-22-2016 08:45 PM
[NMR paper] Fluorine NMR-based assay in living mammalian cells. Fluorine NMR-based assay in living mammalian cells. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-PubMedLink.gif Related Articles Fluorine NMR-based assay in living mammalian cells. Anal Biochem. 2015 Dec 11; Authors: Veronesi M, Giacomina F, Romeo E, Castellani B, Ottonello G, Lambruschini C, Garau G, Scarpelli R, Bandiera T, Piomelli D, Dalvit C Abstract Nuclear Magnetic Resonance (NMR)-based screening has been recognized as a powerful approach for the identification...	nmrlearner	Journal club	0	12-28-2015 12:26 AM
[NMR paper] Chemical proteomic tool for ligand mapping of CYP antitargets: an NMR-compatible 3D Q Chemical proteomic tool for ligand mapping of CYP antitargets: an NMR-compatible 3D QSAR descriptor in the Heme-Based Coordinate System. Related Articles Chemical proteomic tool for ligand mapping of CYP antitargets: an NMR-compatible 3D QSAR descriptor in the Heme-Based Coordinate System. J Chem Inf Comput Sci. 2004 Jul-Aug;44(4):1456-65 Authors: Yao H, Costache AD, Sem DS Chemical proteomic strategies strive to probe and understand protein-ligand interactions across gene families. One gene family of particular interest in drug and xenobiotic...	nmrlearner	Journal club	0	11-24-2010 09:51 PM

« 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