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FOLDpro specifications


Unique identifier OMICS_10827
Name FOLDpro
Interface Web user interface
Restrictions to use None
Input data Protein sequence
Input format Plain sequence
Computer skills Basic
Stability Stable
Maintained Yes


  • person_outline Pierre Baldi <>

Publication for FOLDpro

FOLDpro citations


In silico analysis of an envelope domain III based multivalent fusion protein as a potential dengue vaccine candidate

PMCID: 4742598
PMID: 26866023
DOI: 10.7774/cevr.2016.5.1.41

[…] tertiary structure prediction was performed by three methods including modeller (, tasser (, and foldpro ( the stability of produced structural models was analyzed by pymol and swiss-pdbviewer. evaluation of model stability was performed based on energy minimization […]


Fast evolutionary rates associated with functional loss in class I glucose transporters of Schistosoma mansoni

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

[…] package (dnastar)., to approximate an accurate tertiary model of the s. mansoni glucose transporters sgtp1, sgtp2, sgtp3 and sgtp4 we used several protein 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 []. […]


Gene expression changes in the salivary glands of Anopheles coluzzii elicited by Plasmodium berghei infection

PMCID: 4580310
PMID: 26395987
DOI: 10.1186/s13071-015-1079-8

[…] of the phylogenetic tree was performed with treedyn (v 198.3) []., to approximate an accurate tertiary model of the an. coluzzii protein, we used several protein structure prediction servers, namely foldpro [], i-tasser [], 3d-jigsaw, loopp [], rosetta [], phyre2 [] and swissmodel []. to assess the quality of the output models and to choose the top candidates, we used resprox [], qmean [], […]


Incorporation of Local Structural Preference Potential Improves Fold Recognition

PMCID: 3041821
PMID: 21365008
DOI: 10.1371/journal.pone.0017215

[…] the fold recognition sensitivities between fr-t5 and the existing 9 threading methods that demonstrated good performance in previous casps, namely samt98 , fugue , raptor , sparks , hhpred , foldpro , sp3 , sp4 , sp5 . shows that in terms of fold recognition sensitivity, fr-t5 is comparable to the best of these existing 9 threading methods in finding structural templates for proteins […]


Improving consensus contact prediction via server correlation reduction

PMCID: 2689239
PMID: 19419562
DOI: 10.1186/1472-6807-9-28

[…] also taking correlated mutation information into consideration., to evaluate the performance of the proposed consensus method, six threading-based protein structure prediction servers are used: foldpro [], mgenthreader [,], raptor [,], fugue3 [], sam-t02 [], and spark3 []. although there are some servers, such as rosetta and zhang-server, with a better performance than that of the six […]


A multi template combination algorithm for protein comparative modeling

PMCID: 2311309
PMID: 18366648
DOI: 10.1186/1472-6807-8-18

[…] uses the best template, the multi-template approach yields only slightly better performance. during the casp7 experiment, the preliminary implementation of the multi-template combination algorithm (foldpro) was ranked second among 67 servers in the category of high-accuracy structure prediction in terms of gdt-ts measure., we have developed a novel multi-template algorithm to improve protein […]

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FOLDpro institution(s)
Institute for Genomics and Bioinformatics, School of Information and Computer Sciences, University of California, Irvine, CA, USA

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