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Quick Search

 Select "All" from the drop down menu and the input field empty to see the whole dataset and related information

 To find PKB ID, NCBI ID, Pseudoknot span or any other related information to the pseudoknots select any of the following single input

1. Abbreviation

   Select "Abbreviation" from the drop down menu and insert any abbreviations of different organisms in the input box, some examples are given below

   • BLV - Bovine Leukemia Virus
   • BWYV - Beet Western-Yellows Virus
   • EIAV - Equine Infectious Anemic Virus
   • FIV - Feline Immunodeficiency Virus
   • TMGMV_UPD-PK1 - tobacco mild green mosaic virus
   Classification

   Select "Classification" from the drop down menu and input the classification type based on hairpin loop (H) or Bulge loop (L). There could be other classifications as well such as
   eg. HHH
      HLin
      HLout

   Comments

   Select "Comments" from the drop down menu and input any keywords or comments related to a Pseudoknot
   eg. tRNA

   Continuous

   Select "Continuous" from the drop down menu and input "yes" or "no" for finding Pseudoknots that are continuous or discontinuous respectively.

   eg. yes
      no
   
   Definition

   Select "Definition" from the drop down menu and input any keywords or definition related to a Pseudoknot
   eg. ribosomal frameshift

   NCBI number

   Select "NCBI number" from the drop down menu and input any NCBI IDs to get the Pseudoknot
   eg. AF035200

   Keywords

   Select "Keywords" from the drop down menu and input any keyword to find the related Pseudoknot
   eg. tymoviruses

   Organism

   Select "Organism" from the drop down menu and input any names to find a Pseudoknot of that organism
   eg. human

   PKB number

   Select "PKB number" from the drop down menu and input any Pseudobase IDs to get the Pseudoknot
   eg. PKB100

   RNA type

   Select "RNA type" from the drop down menu and input any keyword to find the related Pseudoknot
   eg. Viral ribosomal frameshifting

   Span

   Select "Span" from the drop down menu and input any numeric value to find a Pseudoknot of that length
   eg. 121

   Submitted by

   Select "Submitted by" from the drop down menu and input any authors name to find the Pseudoknot submitted by that individual
   eg. A.P.Gultyaev

   Supported by

   Select "Supported by" from the drop down menu and input any keywords to find the related Pseudoknot
   eg. Sequence comparison

   Advanced Search

     Combinations of different desired properties will work with keeping the other parameters blank.
     Following shows the type of inputs required for each field.

   1. Sequence: First few molecules such as AAAC or full sequence
   2. Keyword: type any words
   3. PKB no.: PKB100
   4. Organism: Human
   5. Comment: tRNA
   6. Submitted by: A.P.Gultyaev
   7. Span: From the drop down menu select "greater than", "less than" or "equal to" and input the numeric value of the length. eg. 200
   8. RNA type: Select any type from the dropdown menu to find the related Pseudoknot.
   9. Supported by: Select any type from the dropdown menu to find the related Pseudoknot.
   10. Pseudoknot type: Select any type from the dropdown menu to find the related Pseudoknot.
   11. Loop length: From the drop down menu select "greater than", "less than" or "equal to" and input the numeric value of the length. eg. 10
   12. Stem length: From the drop down menu select "greater than", "less than" or "equal to" and input the numeric value of the length. eg. 10
   13. Continuous: to check only Psuedoknots without gaps "yes", with gaps "no" or use "both" to see all.
   14. Check any combination of the boxes to add those columns in the result table