| METHOD about: | ../../doc/explain_methods.html#PX_about_phdpsi |
| METHOD url: | PHDpsi |
| METHOD quote: | D Przybylski & B Rost:: Alignments grow, secondary structure prediction improves. Proteins, submitted, 2001. |
| TYPE : | sec |
| NPROT : | 370 |
| NWEEKS : | 78 |
| AVE_Q3 : | 72.8 |
| AVE_SOV: | 68.8 |
| NOTE 1 : | here ALL results obtained for phdpsi 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 | 72.7 | 76 | 79 | 63 | 67 | 74 | 69 | 68.8 | 69.3 | 72.0 | 64.8 | 3.3 | 0.32 | 0.32 | 0.32 | 0.65 | 0.55 | 0.50 | 8135.1 | 8.5 | 7.3 |
| sec | 2004_04_28 | dssp | sig | 11.9 | 36 | 36 | 38 | 40 | 17 | 15 | 17.1 | 31.1 | 28.2 | 17.8 | 6.3 | 0.17 | 0.17 | 0.17 | 0.26 | 0.30 | 0.19 | 8064.7 | 9.0 | 9.6 |
| sec | 2004_04_28 | dssp | errsig | 0.62 | 1 | 1 | 1 | 2 | 0.90 | 0.78 | 0.89 | 1.6 | 1.4 | 0.92 | 0.33 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.01 | 419.2 | 0.47 | 0.50 |
| Type | Method | Month | Nprot | Average Q3 for month | File with details for month |
|---|---|---|---|---|---|
| sec | phdpsi | ALL | 370 | 72.8 | |
| sec | phdpsi | 2001_04 | 1 | 82.7 | old/2001_04_phdpsi.html |
| sec | phdpsi | 2003_07 | 5 | 76.7 | old/2003_07_phdpsi.html |
| sec | phdpsi | 2003_08 | 5 | 64.5 | old/2003_08_phdpsi.html |
| sec | phdpsi | 2003_11 | 22 | 74.4 | old/2003_11_phdpsi.html |
| sec | phdpsi | 2003_12 | 18 | 73.7 | old/2003_12_phdpsi.html |
| sec | phdpsi | 2004_01 | 11 | 72.5 | old/2004_01_phdpsi.html |
| sec | phdpsi | 2004_02 | 19 | 72.3 | old/2004_02_phdpsi.html |
| sec | phdpsi | 2004_03 | 12 | 73.5 | old/2004_03_phdpsi.html |
| sec | phdpsi | ALL | 370 | 72.8 |
| 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) ) |