Match!

The Jpred 3 secondary structure prediction server.

Published on May 19, 2008in Nucleic Acids Research11.15
· DOI :10.1093/nar/gkn238
Christian Cole18
Estimated H-index: 18
(Dund.: University of Dundee),
Jonathan D. Barber4
Estimated H-index: 4
(Dund.: University of Dundee),
Geoffrey J. Barton60
Estimated H-index: 60
(Dund.: University of Dundee)
Abstract
Jpred (http://www.compbio.dundee.ac.uk/jpred) is a secondary structure prediction server powered by the Jnet algorithm. Jpred performs over 1000 predictions per week for users in more than 50 countries. The recently updated Jnet algorithm provides a three-state (α-helix, β-strand and coil) prediction of secondary structure at an accuracy of 81.5%. Given either a single protein sequence or a multiple sequence alignment, Jpred derives alignment profiles from which predictions of secondary structure and solvent accessibility are made. The predictions are presented as coloured HTML, plain text, PostScript, PDF and via the Jalview alignment editor to allow flexibility in viewing and applying the data. The new Jpred 3 server includes significant usability improvements that include clearer feedback of the progress or failure of submitted requests. Functional improvements include batch submission of sequences, summary results via email and updates to the search databases. A new software pipeline will enable Jnet/Jpred to continue to be updated in sync with major updates to SCOP and UniProt and so ensures that Jpred 3 will maintain high-accuracy predictions.
  • References (34)
  • Citations (1262)
References34
Newest
#1Gianluca Pollastri (UCD: University College Dublin)H-Index: 29
#2Alberto J. M. Martin (UCD: University College Dublin)H-Index: 13
Last.Alessandro Vullo (UCD: University College Dublin)H-Index: 7
view all 4 authors...
105 CitationsSource
#1Russell L. Marsden (UCL: University College London)H-Index: 12
#2Tony A Lewis (UCL: University College London)H-Index: 1
Last.Christine A. Orengo (UCL: University College London)H-Index: 67
view all 3 authors...
42 CitationsSource
#1Bin Qian (HHMI: Howard Hughes Medical Institute)H-Index: 10
#2Srivatsan Raman (HHMI: Howard Hughes Medical Institute)H-Index: 12
Last.David Baker (HHMI: Howard Hughes Medical Institute)H-Index: 156
view all 7 authors...
263 CitationsSource
#1James A. R. Dalton (University of Leeds)H-Index: 10
#2Richard M. Jackson (University of Leeds)H-Index: 24
67 CitationsSource
#1Baris E. Suzek (GUMC: Georgetown University Medical Center)H-Index: 12
#2Hongzhan Huang (GUMC: Georgetown University Medical Center)H-Index: 34
Last.Cathy H. Wu (GUMC: Georgetown University Medical Center)H-Index: 59
view all 5 authors...
673 CitationsSource
#1Peter Y. Chou (Brandeis University)H-Index: 13
#2Gerald D. Fasman (Brandeis University)H-Index: 44
1,963 CitationsSource
#1Scott Montgomerie (U of A: University of Alberta)H-Index: 1
#2Shan Sundararaj (U of A: University of Alberta)H-Index: 2
Last.David S. Wishart (U of A: University of Alberta)H-Index: 84
view all 4 authors...
117 CitationsSource
#1Phil BradleyH-Index: 31
#2Kira M.S. MisuraH-Index: 10
Last.David BakerH-Index: 156
view all 3 authors...
634 CitationsSource
#1David T. Jones (UCL: University College London)H-Index: 85
#2Kevin Bryson (UCL: University College London)H-Index: 21
Last.Jonathan J. Ward (UCL: University College London)H-Index: 14
view all 7 authors...
71 CitationsSource
#1Amos Marc BairochH-Index: 92
#2Rolf ApweilerH-Index: 84
Last.Lai-Su L. YehH-Index: 15
view all 15 authors...
3,077 CitationsSource
Cited By1262
Newest
#1Catherine Suarez (University of Montpellier)
#2Gaelle Lentini (University of Montpellier)H-Index: 4
Last.Maryse Lebrun (University of Montpellier)H-Index: 28
view all 12 authors...
Source
Source
#1Fabián Lorenzo-Díaz (ULL: University of La Laguna)H-Index: 10
#2Inmaculada Moreno-Córdoba (CSIC: Spanish National Research Council)H-Index: 4
Last.Manuel Espinosa (CSIC: Spanish National Research Council)H-Index: 35
view all 3 authors...
Source
#1Daniel P. Oehme (University of Melbourne)H-Index: 7
#2Thomas Shafee (La Trobe University)H-Index: 9
Last.Monika S. Doblin (University of Melbourne)H-Index: 24
view all 5 authors...
Source
#1Qingyu Chen (University of Melbourne)H-Index: 6
#2Ramona Britto (EMBL-EBI: European Bioinformatics Institute)H-Index: 3
Last.Karin Verspoor (University of Melbourne)H-Index: 26
view all 11 authors...
Source
Source
#1Armina Alagheband Bahrami (Shahid Beheshti University of Medical Sciences and Health Services)H-Index: 1
#2Zahra Payandeh (Tabriz University of Medical Sciences)H-Index: 3
Last.Mojgan Bandehpour (Shahid Beheshti University of Medical Sciences and Health Services)H-Index: 9
view all 5 authors...
Source
#1Sumita Karan (JNU: Jawaharlal Nehru University)H-Index: 1
#2Bhanu Pratap (JNU: Jawaharlal Nehru University)
Last.Ajay K. Saxena (JNU: Jawaharlal Nehru University)H-Index: 7
view all 4 authors...
Source
#1Wafaa Wardah (USP: University of the South Pacific)
#2Mohammad G.M. Khan (USP: University of the South Pacific)H-Index: 14
Last.Mahmood A. Rashid (Griffith University)H-Index: 8
view all 4 authors...
Source
Source
View next paperPROCHECK: a program to check the stereochemical quality of protein structures