[ASAP] Coupling Green Fluorescent Protein Expression with Chemical Modification to Probe Functionally Relevant Riboswitch Conformations in Live Bacteria

		BioNMR > Educational resources > Journal club
[ASAP] Coupling Green Fluorescent Protein Expression with Chemical Modification to Probe Functionally Relevant Riboswitch Conformations in Live Bacteria

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

06-27-2018, 01:51 AM

nmrlearner

Senior Member

Join Date: Jan 2005

Posts: 23,777

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

[ASAP] Coupling Green Fluorescent Protein Expression with Chemical Modification to Probe Functionally Relevant Riboswitch Conformations in Live Bacteria

[ASAP] Coupling Green Fluorescent Protein Expression with Chemical Modification to Probe Functionally Relevant Riboswitch Conformations in Live Bacteria

Biochemistry
DOI: 10.1021/acs.biochem.8b00316

More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
A Fluorescent Probe with Improved Water SolubilityPermits the Analysis of Protein S-DepalmitoylationActivity in Live Cells A Fluorescent Probe with Improved Water SolubilityPermits the Analysis of Protein S-DepalmitoylationActivity in Live Cells http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.7b00835/20171018/images/medium/bi-2017-00835x_0005.gif Biochemistry DOI: 10.1021/acs.biochem.7b00835 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/D_OdeXwPKoc More...	nmrlearner	Journal club	0	10-19-2017 08:03 AM
[NMR paper] NMR Structure of the C-Terminal Transmembrane Domain of the HDL Receptor, SR-BI, and a Functionally Relevant Leucine Zipper Motif. NMR Structure of the C-Terminal Transmembrane Domain of the HDL Receptor, SR-BI, and a Functionally Relevant Leucine Zipper Motif. http://www.bionmr.com//www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--linkinghub.elsevier.com-ihub-images-cellhub.gif Related Articles NMR Structure of the C-Terminal Transmembrane Domain of the HDL Receptor, SR-BI, and a Functionally Relevant Leucine Zipper Motif. Structure. 2017 Mar 07;25(3):446-457 Authors: Chadwick AC, Jensen DR, Hanson PJ, Lange PT, Proudfoot SC, Peterson FC, Volkman BF, Sahoo D ...	nmrlearner	Journal club	0	08-25-2017 04:11 AM
[NMR paper] A general mechanism of photoconversion of green-to-red fluorescent proteins based on blue and infrared light reduces phototoxicity in live-cell single-molecule imaging A general mechanism of photoconversion of green-to-red fluorescent proteins based on blue and infrared light reduces phototoxicity in live-cell single-molecule imaging Photoconversion of fluorescent proteins by blue and complementary near-infrared light, termed primed conversion (PC), is a mechanism recently discovered for Dendra2. We demonstrate that controlling the conformation of arginine at residue 66 by threonine at residue 69 of fluorescent proteins from Anthozoan families (Dendra2, mMaple, Eos, mKikGR, pcDronpa protein families) represents a general route to facilitate PC....	nmrlearner	Journal club	0	06-02-2017 08:33 PM
NMRStructural Profiling of Transcriptional IntermediatesReveals Riboswitch Regulation by Metastable RNA Conformations NMRStructural Profiling of Transcriptional IntermediatesReveals Riboswitch Regulation by Metastable RNA Conformations Christina Helmling, Anna Wacker, Michael T. Wolfinger, Ivo L. Hofacker, Martin Hengesbach, Boris Fu?rtig and Harald Schwalbe http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/jacsat/0/jacsat.ahead-of-print/jacs.6b10429/20170210/images/medium/ja-2016-104296_0007.gif Journal of the American Chemical Society DOI: 10.1021/jacs.6b10429 http://feeds.feedburner.com/~ff/acs/jacsat?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/jacsat/~4/wOFSRQbkFqs	nmrlearner	Journal club	0	02-14-2017 12:51 AM
Tryptophan-Rich Sensory Protein/Translocator Protein(TSPO) from Cyanobacterium Fremyella diplosiphon Bindsa Broad Range of Functionally Relevant Tetrapyrroles Tryptophan-Rich Sensory Protein/Translocator Protein(TSPO) from Cyanobacterium Fremyella diplosiphon Bindsa Broad Range of Functionally Relevant Tetrapyrroles http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.6b01019/20161216/images/medium/bi-2016-01019r_0010.gif Biochemistry DOI: 10.1021/acs.biochem.6b01019 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/Zo9sV-9VU7Y More...	nmrlearner	Journal club	0	12-19-2016 07:58 PM
[NMR paper] Towards Relatively General and Accurate Quantum Chemical Predictions of Solid-State (17)O NMR Chemical Shifts in Various Biologically Relevant Oxygen-containing Compounds. Towards Relatively General and Accurate Quantum Chemical Predictions of Solid-State (17)O NMR Chemical Shifts in Various Biologically Relevant Oxygen-containing Compounds. Towards Relatively General and Accurate Quantum Chemical Predictions of Solid-State (17)O NMR Chemical Shifts in Various Biologically Relevant Oxygen-containing Compounds. J Phys Chem B. 2015 Aug 14; Authors: Rorick A, Michael MA, Yang L, Zhang Y Abstract Oxygen is an important element in most biologically significant molecules and experimental solid-state...	nmrlearner	Journal club	0	08-15-2015 04:01 PM
[NMR paper] Beyond a fluorescent probe: Inhibition of cell division protein FtsZ by mant-GTP elucidated by NMR and biochemical approaches. Beyond a fluorescent probe: Inhibition of cell division protein FtsZ by mant-GTP elucidated by NMR and biochemical approaches. Related Articles Beyond a fluorescent probe: Inhibition of cell division protein FtsZ by mant-GTP elucidated by NMR and biochemical approaches. ACS Chem Biol. 2015 Aug 6; Authors: Huecas S, Marcelo F, Perona A, Ruiz LB, Morreale A, Cañada FJ, Jimenez-Barbero J, Andreu JM Abstract FtsZ is the organizer of cell division in most bacteria and a target in the quest for new antibiotics. FtsZ is a tubulin-like...	nmrlearner	Journal club	0	08-08-2015 12:17 PM
[NMR paper] Side-chains in native and random coil protein conformations. Analysis of NMR coupling Side-chains in native and random coil protein conformations. Analysis of NMR coupling constants and chi1 torsion angle preferences. Related Articles Side-chains in native and random coil protein conformations. Analysis of NMR coupling constants and chi1 torsion angle preferences. J Mol Biol. 1998 Jul 31;280(5):867-77 Authors: West NJ, Smith LJ The behaviour of amino acid side-chains in proteins in solution has been characterised by analysing NMR 3JHalphaH beta coupling constants and crystallographic chi1 torsion angles. Side-chains both in the...	nmrlearner	Journal club	0	11-17-2010 11:15 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