| 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 : | 1598 |
| NWEEKS : | 109 |
| AVE_Q3 : | 74.4 |
| AVE_SOV: | 70.0 |
| 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 | 2002_10_07 | dssp | psum | 74.4 | 77 | 81 | 63 | 71 | 77 | 70 | 69.9 | 69.3 | 68.0 | 66.0 | 2.6 | 0.33 | 0.33 | 0.34 | 0.67 | 0.59 | 0.53 | 7997.5 | 6.8 | 5.6 |
| sec | 2002_10_07 | dssp | sig | 9.7 | 32 | 32 | 31 | 35 | 13 | 12 | 13.8 | 28.0 | 26.1 | 14.7 | 4.3 | 0.24 | 0.27 | 0.22 | 0.22 | 0.25 | 0.15 | 7920.1 | 8.3 | 6.7 |
| sec | 2002_10_07 | dssp | errsig | 0.24 | 0.80 | 0.81 | 0.79 | 0.88 | 0.34 | 0.30 | 0.34 | 0.70 | 0.65 | 0.37 | 0.11 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 198.1 | 0.20 | 0.16 |
| Type | Method | Month | Nprot | Average Q3 for month | File with details for month |
|---|---|---|---|---|---|
| sec | phdpsi | ALL | 1598 | 74.4 | |
| sec | phdpsi | 2000_04 | 10 | 73.1 | old/2000_04_phdpsi.html |
| sec | phdpsi | 2000_05 | 15 | 73.9 | old/2000_05_phdpsi.html |
| sec | phdpsi | 2000_06 | 10 | 78.5 | old/2000_06_phdpsi.html |
| sec | phdpsi | 2000_07 | 28 | 74.3 | old/2000_07_phdpsi.html |
| sec | phdpsi | 2000_08 | 18 | 77.7 | old/2000_08_phdpsi.html |
| sec | phdpsi | 2000_09 | 24 | 75.5 | old/2000_09_phdpsi.html |
| sec | phdpsi | 2000_10 | 33 | 72.7 | old/2000_10_phdpsi.html |
| sec | phdpsi | 2000_11 | 33 | 72.9 | old/2000_11_phdpsi.html |
| sec | phdpsi | 2000_12 | 38 | 75.3 | old/2000_12_phdpsi.html |
| sec | phdpsi | 2001_01 | 24 | 75.9 | old/2001_01_phdpsi.html |
| sec | phdpsi | 2001_02 | 28 | 72.7 | old/2001_02_phdpsi.html |
| sec | phdpsi | 2001_03 | 36 | 72.7 | old/2001_03_phdpsi.html |
| sec | phdpsi | 2001_04 | 11 | 71.6 | old/2001_04_phdpsi.html |
| sec | phdpsi | 2001_05 | 12 | 71.9 | old/2001_05_phdpsi.html |
| sec | phdpsi | 2001_06 | 16 | 67.6 | old/2001_06_phdpsi.html |
| sec | phdpsi | 2001_07 | 25 | 77.2 | old/2001_07_phdpsi.html |
| sec | phdpsi | 2001_08 | 47 | 72.7 | old/2001_08_phdpsi.html |
| sec | phdpsi | 2001_09 | 35 | 74.8 | old/2001_09_phdpsi.html |
| sec | phdpsi | 2001_10 | 7 | 61.7 | old/2001_10_phdpsi.html |
| sec | phdpsi | 2001_11 | 15 | 77.6 | old/2001_11_phdpsi.html |
| sec | phdpsi | 2001_12 | 147 | 75.8 | old/2001_12_phdpsi.html |
| sec | phdpsi | 2002_01 | 37 | 74.9 | old/2002_01_phdpsi.html |
| sec | phdpsi | 2002_02 | 30 | 72.7 | old/2002_02_phdpsi.html |
| sec | phdpsi | 2002_03 | 27 | 75.1 | old/2002_03_phdpsi.html |
| sec | phdpsi | 2002_04 | 23 | 73.7 | old/2002_04_phdpsi.html |
| sec | phdpsi | 2002_05 | 38 | 70.7 | old/2002_05_phdpsi.html |
| sec | phdpsi | 2002_06 | 21 | 68.6 | old/2002_06_phdpsi.html |
| sec | phdpsi | 2002_07 | 23 | 76.4 | old/2002_07_phdpsi.html |
| sec | phdpsi | ALL | 1598 | 74.4 |
| 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) ) |