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Protocols

CS23D specifications

Information


Unique identifier OMICS_05520
Name CS23D
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for CS23D

CS23D citations

 (5)
call_split

New Insights into Cooperative Binding of Homeodomain Transcription Factors PREP1 and PBX1 to DNA

2017
Sci Rep
PMCID: 5240567
PMID: 28094776
DOI: 10.1038/srep40665
call_split See protocol

[…] server (http://csi3.wishartlab.com/cgi-bin/index.php) based on PREP1HD 13Cα, 13CO, 13Cβ, 15N, 1Hα, 1HN chemical shifts. Chemical shifts were also used as input to generate a 3D model of PREP1HD using CS23D2.0 web server (http://www.cs23d.ca/index.php). […]

library_books

The AUDANA algorithm for automated protein 3D structure determination from NMR NOE data

2016
J Biomol NMR
PMCID: 4921114
PMID: 27169728
DOI: 10.1007/s10858-016-0036-y

[…] assignments) algorithm matches experimental chemical shifts to values predicted for the crystallographic database to generate templates for chemical shift-based Rosetta modeling. (Shen and Bax ). The CS23D (chemical shift to 3D structure) web server accepts chemical shifts and generates coordinates by means of homology modeling, chemical shift threading, or Rosetta-based shift-aided structure pred […]

library_books

Performance of the WeNMR CS Rosetta3 web server in CASD NMR

2015
J Biomol NMR
PMCID: 4569659
PMID: 25982706
DOI: 10.1007/s10858-015-9942-7

[…] years to automate as much as possible this process, often in combination with structure calculations (Guerry and Herrmann ). Methods such as CS-ROSETTA (Shen et al. ), CHESSHIRE (Cavalli et al. ) and CS23D (Wishart et al. ) avoid this step by exploiting the structural knowledge present in the readily available backbone chemical shifts. The backbone chemical shifts themselves reflect an appreciable […]

library_books

acACS: Improving the Prediction Accuracy of Protein Subcellular Locations and Protein Classification by Incorporating the Average Chemical Shifts Composition

2014
Sci World J
PMCID: 4106170
PMID: 25110749
DOI: 10.1155/2014/864135

[…] y its structure. According to this point of view, there must be some relationship among the averaged chemical shift, protein structure, and functions [, ]. Wishart has developed a web server, namely, CS23D, for rapidly generating accurate 3D protein structures using only assigned NMR chemical shifts []. More than 100 proteins from BMRB [] were tested and found that the resulting structures general […]

library_books

A novel expression system for production of soluble prion proteins in E. coli

2012
Microb Cell Fact
PMCID: 3283519
PMID: 22233534
DOI: 10.1186/1475-2859-11-6

[…] ce assignment methodology []. Identical experiments were performed for MoPrP(89-230) at pH 7.0. All the NMR data were processed with NMRPipe 2.1 software [] and analysed using CCPNmr Analysis 2.0 []. CS23D2.0 [] was used to generate a 3D model of MoPrP(89-230) at pH 4.6 using only the backbone chemical shifts. […]

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CS23D institution(s)
Department of Computing Science, Department of Biological Sciences, University of Alberta and National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada

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