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ResProx specifications

Information


Unique identifier OMICS_17108
Name ResProx
Interface Web user interface
Restrictions to use None
Input format PDB
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline David Wishart <>

Additional information


http://www.resprox.ca/how_to_use.html

Publication for ResProx

ResProx in publications

 (8)
PMCID: 5712783
PMID: 29225431
DOI: 10.6026/97320630013380

[…] by residue geometry, energy minimized theoretical models were subjected to swiss-model server []. various other model evaluation tools were also employed, i.e. errat [], proq [], molprobity [], resprox [] and prosa-web [] to determine the model quality., metapocket 2.0 was employed to determine active site of vapc9 and vapc10 []. metapocket uses consensus approach to detect ligand-binding […]

PMCID: 5447077
PMID: 28611792
DOI: 10.3389/fpls.2017.00819

[…] model methods including procheck (laskowski et al., ), qualitative model energy analysis (qmean; benkert et al., ), protein structural analysis (prosa; wiederstein and sippl, ), resolution by proxy (resprox; berjanskii et al., ). based on procheck analysis of pdbsum results it was found that total 100.0% of the residues occurred in the most favored regions (a, b, l), 0.0% residues were found […]

PMCID: 5156680
PMID: 28018905
DOI: 10.3389/fmolb.2016.00078

[…] 501 frames extracted from each md ensemble. differences between average and experimentally obtained distances were then calculated., for each md ensemble we also predicted the resolution value using resprox (berjanskii et al., ) and compared it to the predicted resolution of the nmr ensemble deposited in the pdb (pdb entry 2fi2)., a protein structure network (psn) approach was used […]

PMCID: 4653847
PMID: 26584526
DOI: 10.1186/s12864-015-2144-6

[…] structure prediction servers, namely foldpro [], i-tasser [], 3d-jigsaw [], loopp [], phyre2 [] and swissmodel []. to assess the quality of the output models and to choose the top candidates we used resprox [], qmean [], modfold []. we then manually inspected the top three models of each sgtp to determine any unresolved secondary structures (i.e., α-helices)., the top candidate model structures […]

PMCID: 4597404
DOI: 10.1186/1546-0096-13-S1-O14

[…] mutant variations was carried out using the software package rosetta 3.5 using de novo and threading modeling methods. for validation and to determine the correctness of the obtained model vadar and resprox programs was used. models visualization and analysis were performed using vmd program. these software packages have been used in the operating system linux, by 24-nood computer cluster […]


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ResProx institution(s)
Department of Computing Science, University of Alberta, Edmonton, AB, Canada; Department of Biological Sciences, University of Alberta, Edmonton, AB, Canada; National Research Council, National Institute for Nanotechnology (NINT), Edmonton, AB, Canada
ResProx funding source(s)
Supported by the Alberta Prion Research Institute (APRI), PrioNet, and the Natural Sciences and Engineering Research Council (NSERC).

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