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PDBj logo CRNPRED

Prediction of One-dimensional Protein Structures:
Secondary structures, contact numbers and residue-wise contact orders
[Help]

Given a query amino acid sequence, CRNPRED predicts one-dimensional structures including secondary structures, contact numbers and residue-wise contact orders, and returns the results via an email. For more information, please refer to the help page.

CRNPRED query submission

Input amino acid sequence in the FASTA format:
Query Example:
>test_sequence
ADKELKFLVVDDFSTMRRIVRNLLKELGFNNVEEAEDGVDALNKLQAGGYGFVISDWNMP
NMDGLELLKTIRADGAMSALPVLMVTAEAKKENIIAAAQAGASGYVVKPFTAATLEEKLN
KIFEKLGM

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References

  1. CRNPRED: Highly accurate prediction of one-dimensional protein structures by large-scale critical random networks.
    Kinjo, A. R.; Nishikawa, K. BMC Bioinformatics 7:401 (2006) [Primary reference]
  2. Predicting secondary structures, contact numbers, and residue-wise contact orders of native protein structure from amino acid sequence using critical random networks.
    Kinjo, A. R.; Nishikawa, K. BIOPHYSICS 1:67-74 (2005) [Basic methodology]
  3. Recoverable one-dimensional encoding of three-dimensional protein structures.
    Kinjo, A. R.; Nishikawa, K. Bioinformatics 21:2167-2170 (2005) [About one-dimensional structures]

Download software

You can download the CRNPRED software from http://www.bioinformatics.org/crnpred/

Protein Data Bank Japan 2009-06-10 (released) / 2009-10-14 (bug fix)