Structural and dynamics characterization of the Zika virus NS2B using nuclear magnetic resonance and RosettaMP: A challenge for transmembrane protein studies - ScienceDirect.com

		BioNMR > NMR community > Online News
Structural and dynamics characterization of the Zika virus NS2B using nuclear magnetic resonance and RosettaMP: A challenge for transmembrane protein studies - ScienceDirect.com

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

10-10-2024, 02:30 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

Structural and dynamics characterization of the Zika virus NS2B using nuclear magnetic resonance and RosettaMP: A challenge for transmembrane protein studies - ScienceDirect.com

Structural and dynamics characterization of the Zika virus NS2B using nuclear magnetic resonance and RosettaMP: A challenge for transmembrane protein studies ScienceDirect.com
Structural and dynamics characterization of the Zika virus NS2B using nuclear magnetic resonance and RosettaMP: A challenge for transmembrane protein studies - ScienceDirect.com
More...

Did you find this post helpful?

Similar Threads
Thread	Thread Starter	Forum	Replies	Last Post
Global fold and backbone dynamics of the hepatitis C virus E2 glycoprotein transmembrane domain determined by NMR - ScienceDirect.com Global fold and backbone dynamics of the hepatitis C virus E2 glycoprotein transmembrane domain determined by NMR - ScienceDirect.com Global fold and backbone dynamics of the hepatitis C virus E2 glycoprotein transmembrane domain determined by NMR ScienceDirect.com Read here	nmrlearner	Online News	0	04-25-2024 04:20 PM
Conformation and Trimer Association of the Transmembrane Domain of the Parainfluenza Virus Fusion Protein in Lipid ... - ScienceDirect Conformation and Trimer Association of the Transmembrane Domain of the Parainfluenza Virus Fusion Protein in Lipid ... - ScienceDirect Conformation and Trimer Association of the Transmembrane Domain of the Parainfluenza Virus Fusion Protein in Lipid ... ScienceDirect Read here	nmrlearner	Online News	0	02-17-2024 12:31 AM
Conformational dynamics and kinetics of protein interactions by nuclear magnetic resonance - ScienceDirect Conformational dynamics and kinetics of protein interactions by nuclear magnetic resonance ScienceDirect Conformational dynamics and kinetics of protein interactions by nuclear magnetic resonance - ScienceDirect More...	nmrlearner	Online News	0	05-13-2023 02:21 PM
[NMR paper] G Protein-coupled Receptor (GPCR) Reconstitution and Labeling for Solution Nuclear Magnetic Resonance (NMR) Studies of the Structural Basis of Transmembrane Signaling G Protein-coupled Receptor (GPCR) Reconstitution and Labeling for Solution Nuclear Magnetic Resonance (NMR) Studies of the Structural Basis of Transmembrane Signaling G protein-coupled receptors (GPCRs) are a large membrane protein family found in higher organisms, including the human body. GPCRs mediate cellular responses to diverse extracellular stimuli and thus control key physiological functions, which makes them important targets for drug design. Signaling by GPCRs is related to the structure and dynamics of these proteins, which are modulated by extrinsic ligands as well as by...	nmrlearner	Journal club	0	05-15-2022 06:54 AM
[ASAP] Dynamics of Zika Virus Capsid Protein in Solution: The Properties and Exposure of the Hydrophobic Cleft Are Controlled by the a-Helix 1 Sequence Dynamics of Zika Virus Capsid Protein in Solution: The Properties and Exposure of the Hydrophobic Cleft Are Controlled by the a-Helix 1 Sequence https://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.9b00194/20190506/images/medium/bi-2019-00194d_0006.gif Biochemistry DOI: 10.1021/acs.biochem.9b00194 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/lXEnalGKS-Y More...	nmrlearner	Journal club	0	05-07-2019 05:41 AM
[NMR paper] STD-NMR experiments identify a structural motif with novel second-site activity against West Nile virus NS2B-NS3 protease. STD-NMR experiments identify a structural motif with novel second-site activity against West Nile virus NS2B-NS3 protease. Related Articles STD-NMR experiments identify a structural motif with novel second-site activity against West Nile virus NS2B-NS3 protease. Antiviral Res. 2017 Sep 16;: Authors: Schöne T, Grimm LL, Sakai N, Zhang L, Hilgenfeld R, Peters T Abstract West Nile virus (WNV) belongs to the genus Flavivirus of the family Flaviviridae. This mosquito-borne virus that is highly pathogenic to humans has been evolving...	nmrlearner	Journal club	0	09-21-2017 07:24 PM
Interaction of Zika Virus Envelope Protein with Glycosaminoglycans Interaction of Zika Virus Envelope Protein with Glycosaminoglycans http://pubs.acs.org/appl/literatum/publisher/achs/journals/content/bichaw/0/bichaw.ahead-of-print/acs.biochem.6b01056/20170210/images/medium/bi-2016-01056f_0008.gif Biochemistry DOI: 10.1021/acs.biochem.6b01056 http://feeds.feedburner.com/~ff/acs/bichaw?d=yIl2AUoC8zA http://feeds.feedburner.com/~r/acs/bichaw/~4/lewDWHrMDnI More...	nmrlearner	Journal club	0	02-14-2017 12:51 AM
Structural Elucidation of Transmembrane Transporter Protein Bilitranslocase: Conformational analysis of the second transmembrane region TM2 by molecular dynamics and NMR spectroscopy Structural Elucidation of Transmembrane Transporter Protein Bilitranslocase: Conformational analysis of the second transmembrane region TM2 by molecular dynamics and NMR spectroscopy Publication date: Available online 14 June 2013 Source:Biochimica et Biophysica Acta (BBA) - Biomembranes</br> Author(s): Amrita Roy Choudhury , Andrej Perdih , Špela Župerl , Emilia Sikorska , Tom Solmajer , Stefan Jurga , Igor Zhukov , Marjana Novi?</br> Membrane proteins represent about a third of the gene products in most organisms, as revealed by the genome sequencing...	nmrlearner	Journal club	0	06-15-2013 08:18 AM

« 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