| METHOD about: | ../../doc/explain_methods.html#PX_about_apssp2 |
| METHOD url: | APSSP2 |
| METHOD quote: | G. P. S. Raghava, :: Protein secondary structure prediction using nearest neighbor and neural network approach. CASP4: 75-76, 2000). |
| TYPE : | sec |
| NPROT : | 122 |
| NWEEKS : | 40 |
| AVE_Q3 : | 75.5 |
| AVE_SOV: | 73.3 |
| NOTE 1 : | here ALL results obtained for apssp2 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 | 2008_04_09 | dssp | psum | 75.4 | 81 | 83 | 66 | 68 | 76 | 73 | 73.3 | 80.2 | 73.7 | 70.0 | 4.0 | 0.36 | 0.37 | 0.34 | 0.69 | 0.59 | 0.57 | 8606.5 | 9.0 | 6.8 |
| sec | 2008_04_09 | dssp | sig | 12.1 | 32 | 34 | 45 | 47 | 17 | 18 | 15.6 | 22.6 | 29.1 | 19.5 | 7.1 | 0.17 | 0.18 | 0.17 | 0.22 | 0.31 | 0.20 | 8555.7 | 10.5 | 8.8 |
| sec | 2008_04_09 | dssp | errsig | 1.0 | 2 | 3 | 4 | 4 | 1 | 1 | 1.4 | 2.0 | 2.6 | 1.7 | 0.64 | 0.01 | 0.01 | 0.01 | 0.02 | 0.02 | 0.01 | 774.5 | 0.95 | 0.80 |
| Type | Method | Month | Nprot | Average Q3 for month | File with details for month |
|---|---|---|---|---|---|
| sec | apssp2 | ALL | 122 | 75.5 | |
| sec | apssp2 | 2001_04 | 1 | 56.4 | old/2001_04_apssp2.html |
| sec | apssp2 | 2003_11 | 22 | 74.3 | old/2003_11_apssp2.html |
| sec | apssp2 | 2003_12 | 19 | 75.7 | old/2003_12_apssp2.html |
| sec | apssp2 | 2004_01 | 12 | 71.2 | old/2004_01_apssp2.html |
| sec | apssp2 | 2004_02 | 19 | 74.6 | old/2004_02_apssp2.html |
| sec | apssp2 | 2004_03 | 13 | 76.6 | old/2004_03_apssp2.html |
| sec | apssp2 | 2004_04 | 10 | 78.3 | old/2004_04_apssp2.html |
| sec | apssp2 | 2004_05 | 6 | 68.5 | old/2004_05_apssp2.html |
| sec | apssp2 | 2004_06 | 4 | 84.1 | old/2004_06_apssp2.html |
| sec | apssp2 | 2004_07 | 5 | 77.9 | old/2004_07_apssp2.html |
| sec | apssp2 | 2004_08 | 6 | 77.9 | old/2004_08_apssp2.html |
| sec | apssp2 | 2004_10 | 4 | 79.7 | old/2004_10_apssp2.html |
| sec | apssp2 | 2004_11 | 3 | 71.9 | old/2004_11_apssp2.html |
| sec | apssp2 | 2005_03 | 3 | 83.2 | old/2005_03_apssp2.html |
| sec | apssp2 | 2005_04 | 3 | 70.3 | old/2005_04_apssp2.html |
| sec | apssp2 | 2005_05 | 5 | 77.5 | old/2005_05_apssp2.html |
| sec | apssp2 | 2005_08 | 2 | 90.2 | old/2005_08_apssp2.html |
| sec | apssp2 | ALL | 122 | 75.5 |
| 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) ) |