METHOD about: | ../../../doc/explain_methods.html#PX_about_scratch |
METHOD url: | SCRATCH (SSpro3) |
TYPE : | sec |
NPROT : | 168 |
NWEEKS : | 42 |
NOTE 1 : | here ALL results obtained for SCRATCH (SSpro3) in month 2004_02 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_02 | dssp | ALL_proteins:psum | 75.5 | 81 | 82 | 65 | 72 | 78 | 73 | 72.0 | 77.9 | 73.8 | 67.9 | 3.3 | 0.36 | 0.36 | 0.35 | 0.70 | 0.61 | 0.58 | 8273.8 | 7.7 | 6.3 |
sec | 2004_02 | dssp | ALL_proteins:sig | 11.3 | 35 | 34 | 41 | 46 | 15 | 15 | 16.2 | 26.3 | 27.7 | 17.3 | 6.5 | 0.16 | 0.17 | 0.16 | 0.26 | 0.30 | 0.20 | 8215.6 | 8.5 | 7.9 |
sec | 2004_02 | dssp | ALL_proteins:errsig | 0.87 | 2 | 2 | 3 | 3 | 1 | 1 | 1.2 | 2.0 | 2.1 | 1.3 | 0.50 | 0.01 | 0.01 | 0.01 | 0.02 | 0.02 | 0.01 | 633.8 | 0.66 | 0.61 |
sec | 2004_02 | dssp | THIS_month:psum | 77.4 | 73 | 83 | 15 | 20 | 71 | 72 | 77.5 | 81.7 | 89.0 | 69 | 5.0 | 0.36 | 0.37 | 0.35 | 0.59 | 0.85 | 0.58 | 88.8 | 11.1 | 6.1 |
sec | 2004_02 | dssp | 1nxh:A | 78.2 | 93 | 80 | 0 | 0 | 36 | 66 | 71.2 | 81 | 100 | 37 | 0.0 | 0.12 | 0.11 | 0.15 | 0.37 | 1.0 | 0.37 | 100.0 | 12.0 | 0.00 |
sec | 2004_02 | dssp | 1oj5:A | 74.7 | 92 | 89 | 58 | 78 | 75 | 61 | 69.6 | 97 | 53 | 66 | 0.0 | 0.46 | 0.46 | 0.47 | 0.87 | 0.54 | 0.47 | 0.0 | 1.0 | 8.0 |
sec | 2004_02 | dssp | 1pzq:A | 88.3 | 78 | 100 | 0 | 0 | 100 | 79 | 100.0 | 100 | 100 | 100 | 0.0 | 0.58 | 0.58 | 0.58 | 0.79 | 1.0 | 0.79 | 100.0 | 11.0 | 0.00 |
sec | 2004_02 | dssp | 1pzr:A | 88.3 | 88 | 94 | 0 | 0 | 88 | 76 | 85.6 | 100 | 100 | 66 | 0.0 | 0.45 | 0.47 | 0.44 | 0.73 | 1.0 | 0.73 | 100.0 | 4.0 | 0.00 |
sec | 2004_02 | dssp | 1qz8:A | 75.7 | 7 | 100 | 80 | 78 | 91 | 72 | 79.1 | 7 | 90 | 88 | 6.3 | 0.32 | 0.28 | 0.37 | 0.25 | 0.61 | 0.65 | 0.0 | 11.0 | 0.00 |
sec | 2004_02 | dssp | 1s0y:B | 58.2 | 84 | 58 | 25 | 80 | 50 | 50 | 58.3 | 79 | 37 | 44 | 16.3 | 0.13 | 0.12 | 0.15 | 0.35 | 0.35 | 0.32 | 100.0 | 20.0 | 20.0 |
sec | 2004_02 | dssp | 1s5l:I | 94.7 | 90 | 100 | 0 | 0 | 100 | 88 | 98.7 | 100 | 100 | 96 | 0.0 | 0.75 | 0.76 | 0.74 | 0.89 | 1.0 | 0.89 | 100.0 | 5.0 | 0.00 |
sec | 2004_02 | dssp | 1s5l:J | 50.0 | 36 | 90 | 0 | 0 | 76 | 58 | 41.1 | 29 | 100 | 84 | 23.6 | 0.14 | 0.18 | 0.11 | 0.30 | 1.0 | 0.46 | 100.0 | 39.0 | 28.0 |
sec | 2004_02 | dssp | 1s5l:L | 89.2 | 95 | 100 | 0 | 0 | 78 | 91 | 75.0 | 100 | 100 | 53 | 0.0 | 0.75 | 0.86 | 0.65 | 0.94 | 1.0 | 0.76 | 100.0 | 2.0 | 8.0 |
sec | 2004_02 | dssp | 1s5l:M | 60.0 | 62 | 83 | 0 | 0 | 50 | 75 | 82.8 | 88 | 100 | 58 | 26.6 | 0.23 | 0.31 | 0.17 | 0.10 | 1.0 | 0.53 | 100.0 | 20.0 | 26.0 |
sec | 2004_02 | dssp | 1s5l:T | 93.5 | 100 | 90 | 0 | 0 | 83 | 100 | 100.0 | 100 | 100 | 100 | 0.0 | 0.70 | 0.68 | 0.72 | 0.86 | 1.0 | 0.86 | 100.0 | 6.0 | 0.00 |
sec | 2004_02 | dssp | 1s5l:X | 77.5 | 93 | 79 | 0 | 0 | 36 | 66 | 87.5 | 100 | 100 | 54 | 0.0 | 0.12 | 0.10 | 0.14 | 0.36 | 1.0 | 0.36 | 100.0 | 12.0 | 0.00 |
sec | 2004_02 | dssp | 1s5l:Z | 67.2 | 69 | 97 | 0 | 0 | 55 | 33 | 87.7 | 94 | 100 | 53 | 8.6 | 0.16 | 0.23 | 0.10 | 0.43 | 1.0 | 0.29 | 100.0 | 24.0 | 13.0 |
sec | 2004_02 | dssp | 1s68:A | 67.0 | 55 | 85 | 63 | 64 | 77 | 62 | 67.6 | 57 | 74 | 70 | 3.0 | 0.24 | 0.24 | 0.25 | 0.60 | 0.48 | 0.41 | 100.0 | 9.0 | 0.00 |
sec | 2004_02 | dssp | 1s6c:B | 85.7 | 92 | 86 | 0 | 0 | 71 | 83 | 67.5 | 69 | 100 | 64 | 0.0 | 0.36 | 0.36 | 0.38 | 0.67 | 1.0 | 0.67 | 100.0 | 4.0 | 0.00 |
sec | 2004_02 | dssp | 1s7b:A | 75.5 | 91 | 77 | 0 | 0 | 39 | 68 | 81.4 | 96 | 100 | 48 | 0.0 | 0.12 | 0.11 | 0.14 | 0.37 | 1.0 | 0.37 | 100.0 | 13.0 | 0.00 |
sec | 2004_02 | dssp | 1ufi:A | 93.8 | 94 | 97 | 0 | 0 | 92 | 85 | 78.6 | 75 | 100 | 92 | 0.0 | 0.62 | 0.63 | 0.61 | 0.84 | 1.0 | 0.84 | 100.0 | 2.0 | 0.00 |
sec | 2004_02 | dssp | 1ujx:A | 76.5 | 0 | 0 | 50 | 66 | 87 | 86 | 64.1 | 100 | 49 | 69 | 5.8 | 0.24 | 0.28 | 0.22 | 1.0 | 0.42 | 0.57 | 100.0 | 6.0 | 7.0 |
sec | 2004_02 | dssp | THIS_month:psum | 77.4 | 73 | 83 | 15 | 20 | 71 | 72 | 77.5 | 81.7 | 89.0 | 69 | 5.0 | 0.36 | 0.37 | 0.35 | 0.59 | 0.85 | 0.58 | 88.8 | 11.1 | 6.1 |
sec | 2004_02 | dssp | ALL_proteins:psum | 75.5 | 81 | 82 | 65 | 72 | 78 | 73 | 72.0 | 77.9 | 73.8 | 67.9 | 3.3 | 0.36 | 0.36 | 0.35 | 0.70 | 0.61 | 0.58 | 8273.8 | 7.7 | 6.3 |
sec | 2004_02 | dssp | ALL_proteins:sig | 11.3 | 35 | 34 | 41 | 46 | 15 | 15 | 16.2 | 26.3 | 27.7 | 17.3 | 6.5 | 0.16 | 0.17 | 0.16 | 0.26 | 0.30 | 0.20 | 8215.6 | 8.5 | 7.9 |
sec | 2004_02 | dssp | ALL_proteins:errsig | 0.87 | 2 | 2 | 3 | 3 | 1 | 1 | 1.2 | 2.0 | 2.1 | 1.3 | 0.50 | 0.01 | 0.01 | 0.01 | 0.02 | 0.02 | 0.01 | 633.8 | 0.66 | 0.61 |
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) ) |