| 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 : | 374 |
| NWEEKS : | 86 |
| AVE_Q3 : | 75.9 |
| AVE_SOV: | 73.0 |
| 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 | 2004_04_28 | dssp | psum | 75.9 | 82 | 80 | 66 | 73 | 75 | 74 | 73.0 | 77.9 | 72.9 | 69.1 | 2.8 | 0.37 | 0.37 | 0.37 | 0.69 | 0.61 | 0.56 | 8529.4 | 7.0 | 5.7 |
| sec | 2004_04_28 | dssp | sig | 12.1 | 32 | 32 | 39 | 43 | 14 | 13 | 17.3 | 24.8 | 29.0 | 18.3 | 4.6 | 0.17 | 0.17 | 0.18 | 0.25 | 0.29 | 0.19 | 8455.5 | 8.8 | 7.1 |
| sec | 2004_04_28 | dssp | errsig | 0.62 | 1 | 1 | 2 | 2 | 0.76 | 0.70 | 0.89 | 1.2 | 1.5 | 0.95 | 0.24 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.01 | 437.2 | 0.45 | 0.36 |
| Type | Method | Month | Nprot | Average Q3 for month | File with details for month |
|---|---|---|---|---|---|
| sec | psipred | ALL | 374 | 75.9 | |
| 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 | 4 | 77.3 | old/2004_04_psipred.html |
| sec | psipred | ALL | 374 | 75.9 |
| 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) ) |