METHOD about: | ../../../doc/explain_methods.html#PX_about_apssp2 |
METHOD url: | APSSP2 |
TYPE : | sec |
NPROT : | 672 |
NWEEKS : | 29 |
NOTE 1 : | here ALL results obtained for APSSP2 in month 2002_03 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_03 | dssp | ALL_proteins:psum | 82.9 | 86 | 87 | 77 | 85 | 85 | 80 | 78.7 | 80.5 | 77.7 | 77.7 | 1.5 | 0.53 | 0.53 | 0.53 | 0.79 | 0.76 | 0.70 | 8601.1 | 4.6 | 4.3 |
sec | 2002_03 | dssp | ALL_proteins:sig | 11.5 | 27 | 28 | 34 | 36 | 13 | 14 | 15.0 | 21.0 | 23.6 | 17.1 | 3.5 | 0.22 | 0.22 | 0.22 | 0.22 | 0.23 | 0.20 | 8521.5 | 6.2 | 6.4 |
sec | 2002_03 | dssp | ALL_proteins:errsig | 0.44 | 1 | 1 | 1 | 1 | 0.51 | 0.54 | 0.58 | 0.81 | 0.91 | 0.66 | 0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 328.7 | 0.24 | 0.24 |
sec | 2002_03 | dssp | THIS_month:psum | 74.3 | 76 | 68 | 55 | 65 | 76 | 69 | 67.8 | 76.5 | 69.5 | 63.9 | 4.0 | 0.35 | 0.36 | 0.34 | 0.57 | 0.62 | 0.54 | 78.2 | 8.9 | 8.0 |
sec | 2002_03 | dssp | 1gk7:A | 89.7 | 94 | 94 | 0 | 0 | 50 | 50 | 93.2 | 100 | 100 | 33 | 0.0 | 0.19 | 0.19 | 0.19 | 0.44 | 1.0 | 0.44 | 100.0 | 0.00 | 0.00 |
sec | 2002_03 | dssp | 1i60:A | 77.7 | 77 | 90 | 64 | 84 | 84 | 64 | 65.9 | 66 | 62 | 67 | 0.7 | 0.41 | 0.40 | 0.42 | 0.71 | 0.69 | 0.57 | 100.0 | 6.0 | 4.0 |
sec | 2002_03 | dssp | 1ib8:A | 81.1 | 100 | 71 | 78 | 86 | 72 | 84 | 86.2 | 100 | 81 | 83 | 1.8 | 0.51 | 0.52 | 0.50 | 0.79 | 0.74 | 0.64 | 0.0 | 9.0 | 3.0 |
sec | 2002_03 | dssp | 1j5b:A | 78.4 | 77 | 100 | 0 | 0 | 100 | 20 | 18.8 | 18 | 100 | 41 | 0.0 | 0.24 | 0.36 | 0.13 | 0.39 | 1.0 | 0.39 | 100.0 | 21.0 | 0.00 |
sec | 2002_03 | dssp | 1j8c:A | 90.3 | 100 | 71 | 85 | 95 | 90 | 94 | 66.5 | 100 | 100 | 55 | 0.9 | 0.66 | 0.68 | 0.65 | 0.81 | 0.87 | 0.82 | 100.0 | 5.0 | 2.0 |
sec | 2002_03 | dssp | 1jmk:O | 83.0 | 94 | 80 | 68 | 88 | 79 | 84 | 87.6 | 94 | 85 | 81 | 2.6 | 0.49 | 0.48 | 0.50 | 0.77 | 0.73 | 0.70 | 100.0 | 6.0 | 4.0 |
sec | 2002_03 | dssp | 1jmr:B | 84.6 | 97 | 85 | 71 | 87 | 74 | 81 | 85.2 | 99 | 87 | 67 | 1.2 | 0.54 | 0.53 | 0.56 | 0.82 | 0.74 | 0.67 | 100.0 | 6.0 | 3.0 |
sec | 2002_03 | dssp | 1k11:A | 50.0 | 61 | 27 | 33 | 84 | 68 | 56 | 55.7 | 88 | 37 | 72 | 22.4 | 0.14 | 0.14 | 0.14 | 0.19 | 0.34 | 0.41 | 100.0 | 22.0 | 29.0 |
sec | 2002_03 | dssp | 1k24:A | 44.6 | 0 | 0 | 32 | 90 | 74 | 43 | 40.3 | 0 | 33 | 61 | 18.4 | 0.07 | 0.10 | 0.06 | -0.06 | 0.26 | 0.30 | 0.0 | 22.0 | 44.0 |
sec | 2002_03 | dssp | 1k8h:A | 69.9 | 85 | 52 | 62 | 77 | 68 | 79 | 64.1 | 96 | 75 | 51 | 7.5 | 0.28 | 0.29 | 0.28 | 0.55 | 0.56 | 0.54 | 0.0 | 12.0 | 6.0 |
sec | 2002_03 | dssp | 1kg0:C | 70.6 | 80 | 63 | 87 | 52 | 62 | 88 | 63.8 | 89 | 70 | 58 | 0.0 | 0.32 | 0.35 | 0.30 | 0.67 | 0.54 | 0.45 | 100.0 | 2.0 | 16.0 |
sec | 2002_03 | dssp | 1kil:E | 92.7 | 91 | 100 | 0 | 0 | 100 | 62 | 98.0 | 100 | 100 | 84 | 0.0 | 0.57 | 0.65 | 0.49 | 0.75 | 1.0 | 0.75 | 100.0 | 7.0 | 0.00 |
sec | 2002_03 | dssp | 1kj6:A | 40.0 | 60 | 14 | 15 | 33 | 48 | 72 | 38.7 | 80 | 11 | 42 | 17.7 | 0.02 | 0.03 | 0.02 | 0.09 | 0.03 | 0.20 | 100.0 | 35.0 | 15.0 |
sec | 2002_03 | dssp | 1kjk:A | 79.6 | 94 | 94 | 50 | 75 | 85 | 70 | 79.7 | 100 | 52 | 79 | 0.0 | 0.53 | 0.51 | 0.55 | 0.90 | 0.51 | 0.59 | 100.0 | 0.00 | 8.0 |
sec | 2002_03 | dssp | 1kl9:A | 70.0 | 66 | 50 | 61 | 72 | 76 | 71 | 54.6 | 33 | 45 | 65 | 2.0 | 0.24 | 0.25 | 0.24 | 0.54 | 0.45 | 0.43 | 100.0 | 2.0 | 6.0 |
sec | 2002_03 | dssp | 1kqf:B | 76.1 | 67 | 81 | 60 | 64 | 87 | 77 | 71.8 | 72 | 72 | 71 | 4.1 | 0.31 | 0.31 | 0.33 | 0.64 | 0.53 | 0.60 | 100.0 | 5.0 | 1.0 |
sec | 2002_03 | dssp | 1kqf:C | 78.2 | 81 | 91 | 85 | 33 | 66 | 57 | 69.5 | 72 | 60 | 58 | 4.6 | 0.24 | 0.28 | 0.22 | 0.51 | 0.51 | 0.51 | 0.0 | 8.0 | 5.0 |
sec | 2002_03 | dssp | 1kqr:A | 75.0 | 75 | 100 | 68 | 88 | 85 | 58 | 73.3 | 81 | 75 | 67 | 0.0 | 0.39 | 0.39 | 0.40 | 0.85 | 0.57 | 0.52 | 100.0 | 2.0 | 12.0 |
sec | 2002_03 | dssp | 1ktb:A | 79.6 | 82 | 84 | 64 | 81 | 86 | 76 | 75.5 | 88 | 65 | 72 | 2.0 | 0.41 | 0.41 | 0.43 | 0.75 | 0.65 | 0.63 | 0.0 | 0.00 | 5.0 |
sec | 2002_03 | dssp | 1kvk:A | 64.4 | 0 | 0 | 62 | 86 | 91 | 51 | 50.2 | 0 | 52 | 61 | 4.1 | 0.22 | 0.19 | 0.25 | -0.04 | 0.51 | 0.46 | 100.0 | 10.0 | 15.0 |
sec | 2002_03 | dssp | 1kvv:A | 76.9 | 96 | 63 | 91 | 68 | 63 | 95 | 55.9 | 100 | 91 | 41 | 0.0 | 0.45 | 0.48 | 0.43 | 0.67 | 0.76 | 0.59 | 100.0 | 15.0 | 3.0 |
sec | 2002_03 | dssp | 1kzy:C | 66.4 | 80 | 58 | 48 | 64 | 64 | 74 | 67.3 | 84 | 46 | 65 | 3.8 | 0.20 | 0.20 | 0.20 | 0.51 | 0.48 | 0.41 | 100.0 | 11.0 | 4.0 |
sec | 2002_03 | dssp | 1l1c:A | 90.9 | 100 | 100 | 86 | 90 | 93 | 90 | 98.2 | 100 | 100 | 96 | 0.0 | 0.65 | 0.65 | 0.66 | 1.0 | 0.80 | 0.81 | 100.0 | 0.00 | 1.0 |
sec | 2002_03 | dssp | THIS_month:psum | 74.3 | 76 | 68 | 55 | 65 | 76 | 69 | 67.8 | 76.5 | 69.5 | 63.9 | 4.0 | 0.35 | 0.36 | 0.34 | 0.57 | 0.62 | 0.54 | 78.2 | 8.9 | 8.0 |
sec | 2002_03 | dssp | ALL_proteins:psum | 82.9 | 86 | 87 | 77 | 85 | 85 | 80 | 78.7 | 80.5 | 77.7 | 77.7 | 1.5 | 0.53 | 0.53 | 0.53 | 0.79 | 0.76 | 0.70 | 8601.1 | 4.6 | 4.3 |
sec | 2002_03 | dssp | ALL_proteins:sig | 11.5 | 27 | 28 | 34 | 36 | 13 | 14 | 15.0 | 21.0 | 23.6 | 17.1 | 3.5 | 0.22 | 0.22 | 0.22 | 0.22 | 0.23 | 0.20 | 8521.5 | 6.2 | 6.4 |
sec | 2002_03 | dssp | ALL_proteins:errsig | 0.44 | 1 | 1 | 1 | 1 | 0.51 | 0.54 | 0.58 | 0.81 | 0.91 | 0.66 | 0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 328.7 | 0.24 | 0.24 |
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) ) |