| METHOD about: | ../../doc/explain_methods.html#PX_about_psipred |
| METHOD url: | PSIpred |
| METHOD quote: | D Jones:: Protein secondary structure prediction based on position-specific scoring matrices. J Molecular Biology, 292, 195-202, 1999. |
| TYPE : | sec |
| NPROT : | 224 |
| NWEEKS : | 68 |
| AVE_Q3 : | 77.9 |
| AVE_SOV: | 75.3 |
| NOTE 1 : | here ALL results obtained for psipred are given, i.e. NOT those for a common subset! |
| NOTE 2 : | all proteins evaluated had no SIGNIFICANT sequence identity to any protein of previously known structure! |
| type | date | sots | id | Q3 | Q3H%o | Q3H%p | Q3E%o | Q3E%p | Q3L%o | Q3L%p | sov | sovH | sovE | sovL | BAD | info | infoO | infoP | corrH | corrE | corrL | class | contDH | contDE |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| sec | 2007_03_21 | dssp | psum | 77.8 | 86 | 82 | 66 | 74 | 75 | 75 | 75.3 | 81.1 | 72.5 | 70.3 | 2.5 | 0.38 | 0.37 | 0.38 | 0.71 | 0.64 | 0.59 | 8616.0 | 7.9 | 5.5 |
| sec | 2007_03_21 | dssp | sig | 11.3 | 35 | 33 | 46 | 51 | 15 | 14 | 16.4 | 23.3 | 32.6 | 18.2 | 4.5 | 0.18 | 0.19 | 0.19 | 0.22 | 0.29 | 0.20 | 8549.0 | 9.1 | 7.4 |
| sec | 2007_03_21 | dssp | errsig | 0.75 | 2 | 2 | 3 | 3 | 1 | 0.98 | 1.1 | 1.5 | 2.1 | 1.2 | 0.30 | 0.01 | 0.01 | 0.01 | 0.01 | 0.02 | 0.01 | 571.2 | 0.60 | 0.49 |
| Type | Method | Month | Nprot | Average Q3 for month | File with details for month |
|---|---|---|---|---|---|
| sec | psipred | ALL | 224 | 77.9 | |
| sec | psipred | 2001_04 | 1 | 70.9 | old/2001_04_psipred.html |
| sec | psipred | 2003_07 | 5 | 82.2 | old/2003_07_psipred.html |
| sec | psipred | 2003_08 | 5 | 74.7 | old/2003_08_psipred.html |
| sec | psipred | 2003_11 | 8 | 69.3 | old/2003_11_psipred.html |
| sec | psipred | 2003_12 | 19 | 79.0 | old/2003_12_psipred.html |
| sec | psipred | 2004_01 | 12 | 71.2 | old/2004_01_psipred.html |
| sec | psipred | 2004_02 | 19 | 81.1 | old/2004_02_psipred.html |
| sec | psipred | 2004_03 | 13 | 79.5 | old/2004_03_psipred.html |
| sec | psipred | 2004_04 | 11 | 79.4 | old/2004_04_psipred.html |
| sec | psipred | 2004_05 | 6 | 72.4 | old/2004_05_psipred.html |
| sec | psipred | 2004_06 | 7 | 78.7 | old/2004_06_psipred.html |
| sec | psipred | 2004_07 | 10 | 79.5 | old/2004_07_psipred.html |
| sec | psipred | 2004_08 | 17 | 81.9 | old/2004_08_psipred.html |
| sec | psipred | 2004_09 | 12 | 70.7 | old/2004_09_psipred.html |
| sec | psipred | 2004_10 | 10 | 80.7 | old/2004_10_psipred.html |
| sec | psipred | 2004_11 | 8 | 73.6 | old/2004_11_psipred.html |
| sec | psipred | 2004_12 | 1 | 83.1 | old/2004_12_psipred.html |
| sec | psipred | 2005_02 | 1 | 59.7 | old/2005_02_psipred.html |
| sec | psipred | 2005_03 | 18 | 77.9 | old/2005_03_psipred.html |
| sec | psipred | 2005_04 | 12 | 79.9 | old/2005_04_psipred.html |
| sec | psipred | 2005_05 | 12 | 80.9 | old/2005_05_psipred.html |
| sec | psipred | 2005_06 | 4 | 79.5 | old/2005_06_psipred.html |
| sec | psipred | 2005_07 | 15 | 77.6 | old/2005_07_psipred.html |
| sec | psipred | 2005_08 | 17 | 78.3 | old/2005_08_psipred.html |
| sec | psipred | 2005_09 | 2 | 77.2 | old/2005_09_psipred.html |
| sec | psipred | ALL | 224 | 77.9 |
| psum | percentage over all proteins |
| sig | standard deviation |
| errsig | significant difference (to distinguish between two methods) |
| type | prediction type |
| date | date when added [yyyy_mm_dd] |
| sots | standard of truth |
| id | identifier of protein |
| Q3 | three-state per-residue accuracy (percentage of correctly predicted residues) |
| Q3H%o | correctly predicted helix residues (percentage of helix observed) |
| Q3H%p | correctly predicted helix residues (percentage of helix predicted) |
| Q3E%o | correctly predicted strand residues (percentage of helix observed) |
| Q3E%p | correctly predicted strand residues (percentage of helix predicted) |
| Q3L%o | correctly predicted loop residues (percentage of helix observed) |
| Q3L%p | correctly predicted loop residues (percentage of helix predicted) |
| sov | per segment accuracy (three states) |
| sovH | per segment accuracy for helix residues |
| sovE | per segment accuracy for strand residues |
| sovL | per segment accuracy for non-regular residues |
| BAD | percentage of confused HELIX/STRAND residues (helix predicted as strand, strand predicted as helix) |
| infoO | information index accuracy (percentage of observed) |
| infoP | information index accuracy (percentage of predicted) |
| corrH | Matthews correlation index for helix |
| corrE | Matthews correlation index for strand |
| corrL | Matthews correlation index for loop |
| var | variance over all proteins (1/N-1)*( score(i) - |
| sig | sigma (standard deviation) over all proteins (sqrt[var]) |
| errsig | significant differences ( standard dev / sqrt(Nprot) ) |