Author: Rawlings, Neil D.
Title: A large and accurate collection of peptidase cleavages in the MEROPS database Document date: 2009_11_2
ID: 0rq0wdpq_14
Snippet: The MEROPS website has two displays to show peptidase specificity. Both use the data from natural and synthetic substrates, but show only naturally occurring amino acids. The first display is a logo which uses the WebLogo software (27) . Residues P4-P4 0 from all the substrates for a peptidase are treated as an alignment. The observed frequency for each amino acid in each position is calculated as a bit score, the maximum possible being 4.32 bits.....
Document: The MEROPS website has two displays to show peptidase specificity. Both use the data from natural and synthetic substrates, but show only naturally occurring amino acids. The first display is a logo which uses the WebLogo software (27) . Residues P4-P4 0 from all the substrates for a peptidase are treated as an alignment. The observed frequency for each amino acid in each position is calculated as a bit score, the maximum possible being 4.32 bits. An amino acid is shown in the logo (in single-letter code) if the bit score exceeds 0.1. The logo is also shown as a text string, where if a single amino acid predominates at one position (i.e. the bit score exceeds 0.4) the letter is shown in uppercase, and if more than one amino acid predominates in any position a letter is shown in uppercase when the bit score exceeds 0.7 and in lower case if the bit score is between 0.1 and 0.7.
Search related documents:
Co phrase search for related documents- amino acid and low case: 1
- amino acid and observed frequency: 1, 2, 3, 4, 5, 6, 7
- amino acid and peptidase specificity: 1, 2, 3
- amino acid and peptidase substrate: 1, 2, 3
- amino acid and position amino acid: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78, 79, 80
- amino acid and single amino acid: 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 65, 66, 67, 68, 69, 70, 71, 72, 73, 74, 75, 76, 77, 78
- amino acid and single letter: 1, 2, 3, 4, 5
- amino acid and single letter code: 1, 2, 3, 4
- amino acid and WebLogo software: 1
- amino acid occur and position amino acid: 1
- amino acid occur and single amino acid: 1
- bit score and position amino acid: 1
Co phrase search for related documents, hyperlinks ordered by date