SHIFTX statistics

Tool stats & trends

Looking to identify usage trends or leading experts?

Protocols

SHIFTX specifications

Information


Unique identifier OMICS_05513
Name SHIFTX
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes

Versioning


No version available

Information


Unique identifier OMICS_05513
Name SHIFTX
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Publications for SHIFTX

SHIFTX citations

 (20)
library_books

Combined 1H Detected Solid State NMR Spectroscopy and Electron Cryotomography to Study Membrane Proteins across Resolutions in Native Environments

2018
PMCID: 5758107
PMID: 29249608
DOI: 10.1016/j.str.2017.11.011

[…] . Spectra were referenced against adamantane () and histidine () powders. Data were processed with TopSpin 3.0 (Bruker Biospin) and analyzed using Sparky (). Chemical shift predictions were made with Shiftx2 () and FANDAS () using atomic model PDB ID 3wvf (). […]

library_books

Quenching protein dynamics interferes with HIV capsid maturation

2017
Nat Commun
PMCID: 5701193
PMID: 29176596
DOI: 10.1038/s41467-017-01856-y

[…] MHR were observed.Fig. 4 In order to gain a quantitative understanding of the experimental isotropic MAS frequencies of CA–SP1 assemblies, chemical shifts were calculated with the data-based program SHIFTX2 for every MD frame and each of the six WT CTD–SP1 chains. Averaging the shifts for the MD trajectory over all frames and all chains of the hexamer yielded excellent agreement between calculate […]

call_split

A new role for FBP21 as regulator of Brr2 helicase activity

2017
Nucleic Acids Res
PMCID: 5570060
PMID: 28838205
DOI: 10.1093/nar/gkx535
call_split See protocol

[…] ement time. Assignment of the HSQC signals was accomplished using CCPNMR Analysis 2.2.2 () and chemical shift predictions derived from the crystal structure of Brr2C-Sec63 (part of PDB ID 4F91) using ShiftX2 (). All 1H–15N-TROSY-HSQC spectra of amino acid-selectively labeled Brr2C-Sec63 (Leu, Ala (-Trp), Ile, Val, Gly (–Ser, –Cys), Trp–Tyr, Tyr–Phe) were measured at 100–300 μM in 10 mM sodium phos […]

library_books

Modern Technologies of Solution Nuclear Magnetic Resonance Spectroscopy for Three dimensional Structure Determination of Proteins Open Avenues for Life Scientists

2017
Comput Struct Biotechnol J
PMCID: 5408130
PMID: 28487762
DOI: 10.1016/j.csbj.2017.04.001

[…] size or chemical exchange processes . As an alternative approach, dihedral angles and the secondary structure of proteins are predicted by the programs TALOS (and related versions) , , CamShift and SHIFTX2 . These programs use prior chemical shifts statistics, including 1HN, 15N, 13Cα, 13Cβ, 1Hα and carbonyl 13C nuclei, with corresponding structure coordinates.Dihedral angle information is usefu […]

library_books

Fine tuning the extent and dynamics of binding cleft opening as a potential general regulatory mechanism in parvulin type peptidyl prolyl isomerases

2017
Sci Rep
PMCID: 5353683
PMID: 28300139
DOI: 10.1038/srep44504

[…] setup but with S2 and distance restraint force constants set to zero. Correspondence of the ensembles to S2 parameters was checked with the CoNSEnsX server. Chemical shifts were back-calculated with shiftx2 with parameter settings corresponding to the experimental conditions for each molecule as described in the original publications (using default settings resulted in only minor changes not affe […]

call_split

Protein structure refinement using a quantum mechanics based chemical shielding predictor† †Electronic supplementary information (ESI) available. See DOI: 10.1039/c6sc04344e Click here for additional data file.

2016
PMCID: 5399634
PMID: 28451325
DOI: 10.1039/c6sc04344e
call_split See protocol

[…] rarchical agglomerative clustering.CheShift-2 () calculations were performed with the CheShift-2 PyMOL-plugin found at ; http://github.com/aloctavodia/cheshift. CamShift, PPM One, Sparta+, shAIC, and ShiftX2 () calculations are performed using the stand-alone predictors. Scripts to automate these predictions can be found at ; http://github.com/larsbratholm/cs_prediction.Much of the variation in so […]

Citations

Looking to check out a full list of citations?

SHIFTX institution(s)
Faculty of Pharmacy and Pharmaceutical Sciences, University of Alberta, Edmonton, Canada

SHIFTX reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review SHIFTX