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_05 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_05 | 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_05 | 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_05 | 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_05 | dssp | THIS_month:psum | 73.4 | 68 | 73 | 45 | 53 | 76 | 68 | 68.5 | 68.4 | 74.2 | 69.5 | 2.1 | 0.31 | 0.31 | 0.31 | 0.57 | 0.68 | 0.48 | 92.1 | 6.5 | 5.6 |
sec | 2002_05 | dssp | 1cix:A | 68.2 | 0 | 0 | 27 | 50 | 81 | 77 | 66.0 | 100 | 36 | 74 | 0.0 | 0.06 | 0.07 | 0.06 | 1.0 | 0.22 | 0.09 | 100.0 | 6.0 | 11.0 |
sec | 2002_05 | dssp | 1go4:G | 91.0 | 95 | 93 | 75 | 85 | 80 | 85 | 79.2 | 77 | 75 | 90 | 2.0 | 0.58 | 0.57 | 0.60 | 0.80 | 0.78 | 0.78 | 100.0 | 2.0 | 0.00 |
sec | 2002_05 | dssp | 1hxv:A | 75.3 | 66 | 50 | 80 | 80 | 73 | 78 | 78.2 | 50 | 90 | 75 | 0.0 | 0.35 | 0.36 | 0.34 | 0.51 | 0.69 | 0.50 | 100.0 | 3.0 | 0.00 |
sec | 2002_05 | dssp | 1i36:A | 78.4 | 81 | 90 | 85 | 73 | 68 | 61 | 75.1 | 74 | 91 | 69 | 0.8 | 0.41 | 0.42 | 0.40 | 0.68 | 0.75 | 0.50 | 100.0 | 5.0 | 2.0 |
sec | 2002_05 | dssp | 1iko:P | 79.4 | 57 | 100 | 74 | 68 | 85 | 83 | 71.6 | 64 | 62 | 77 | 2.1 | 0.36 | 0.35 | 0.38 | 0.73 | 0.57 | 0.61 | 100.0 | 4.0 | 2.0 |
sec | 2002_05 | dssp | 1ir6:A | 82.6 | 87 | 87 | 68 | 68 | 80 | 80 | 85.4 | 87 | 78 | 84 | 2.0 | 0.43 | 0.44 | 0.44 | 0.75 | 0.64 | 0.67 | 100.0 | 0.00 | 0.00 |
sec | 2002_05 | dssp | 1jjv:A | 89.7 | 92 | 88 | 100 | 90 | 82 | 90 | 100.0 | 100 | 100 | 100 | 0.0 | 0.66 | 0.67 | 0.67 | 0.82 | 0.93 | 0.78 | 100.0 | 1.0 | 1.0 |
sec | 2002_05 | dssp | 1jni:A | 62.9 | 21 | 60 | 25 | 9 | 79 | 76 | 62.1 | 28 | 33 | 73 | 4.8 | 0.05 | 0.05 | 0.05 | 0.26 | 0.04 | 0.19 | 100.0 | 14.0 | 11.0 |
sec | 2002_05 | dssp | 1jsx:A | 91.4 | 100 | 89 | 0 | 0 | 66 | 100 | 97.1 | 100 | 100 | 88 | 0.0 | 0.57 | 0.52 | 0.64 | 0.77 | 1.0 | 0.77 | 100.0 | 8.0 | 0.00 |
sec | 2002_05 | dssp | 1juh:B | 68.2 | 40 | 23 | 64 | 84 | 75 | 67 | 68.1 | 52 | 77 | 62 | 1.2 | 0.21 | 0.22 | 0.21 | 0.24 | 0.57 | 0.39 | 100.0 | 4.0 | 10.0 |
sec | 2002_05 | dssp | 1k3r:B | 72.7 | 72 | 70 | 67 | 69 | 75 | 75 | 74.2 | 78 | 71 | 73 | 3.0 | 0.28 | 0.29 | 0.29 | 0.60 | 0.59 | 0.51 | 100.0 | 0.00 | 0.00 |
sec | 2002_05 | dssp | 1k45:A | 68.5 | 50 | 12 | 58 | 83 | 79 | 74 | 65.6 | 25 | 64 | 68 | 7.7 | 0.19 | 0.21 | 0.18 | 0.19 | 0.51 | 0.52 | 0.0 | 10.0 | 14.0 |
sec | 2002_05 | dssp | 1kjy:B | 57.1 | 58 | 55 | 0 | 0 | 55 | 58 | 63.3 | 68 | 100 | 58 | 0.0 | 0.01 | 0.01 | 0.01 | 0.14 | 1.0 | 0.14 | 100.0 | 2.0 | 0.00 |
sec | 2002_05 | dssp | 1kpp:A | 77.8 | 86 | 80 | 70 | 67 | 76 | 80 | 77.1 | 76 | 65 | 82 | 0.0 | 0.41 | 0.42 | 0.41 | 0.77 | 0.60 | 0.55 | 100.0 | 2.0 | 0.00 |
sec | 2002_05 | dssp | 1kr7:A | 88.2 | 86 | 97 | 0 | 0 | 93 | 71 | 86.5 | 84 | 100 | 92 | 0.0 | 0.47 | 0.50 | 0.45 | 0.74 | 1.0 | 0.74 | 100.0 | 8.0 | 0.00 |
sec | 2002_05 | dssp | 1ksh:B | 65.5 | 87 | 53 | 50 | 100 | 83 | 50 | 57.7 | 100 | 45 | 73 | 6.3 | 0.32 | 0.34 | 0.31 | 0.62 | 0.55 | 0.45 | 100.0 | 9.0 | 28.0 |
sec | 2002_05 | dssp | 1ktg:A | 80.3 | 92 | 88 | 63 | 100 | 94 | 61 | 70.8 | 100 | 57 | 70 | 2.1 | 0.55 | 0.56 | 0.55 | 0.86 | 0.70 | 0.65 | 100.0 | 1.0 | 16.0 |
sec | 2002_05 | dssp | 1kuu:A | 78.7 | 75 | 77 | 76 | 89 | 81 | 71 | 79.7 | 83 | 84 | 73 | 0.4 | 0.43 | 0.43 | 0.44 | 0.70 | 0.73 | 0.58 | 100.0 | 0.00 | 5.0 |
sec | 2002_05 | dssp | 1kv4:A | 71.4 | 63 | 95 | 0 | 0 | 91 | 61 | 56.5 | 47 | 100 | 100 | 9.5 | 0.29 | 0.36 | 0.23 | 0.49 | 1.0 | 0.62 | 100.0 | 23.0 | 9.0 |
sec | 2002_05 | dssp | 1kyq:B | 70.0 | 73 | 71 | 58 | 84 | 71 | 64 | 69.3 | 66 | 68 | 73 | 3.2 | 0.27 | 0.26 | 0.28 | 0.50 | 0.65 | 0.45 | 100.0 | 1.0 | 5.0 |
sec | 2002_05 | dssp | 1l1d:B | 72.8 | 61 | 92 | 45 | 81 | 95 | 65 | 53.6 | 55 | 44 | 57 | 2.0 | 0.36 | 0.32 | 0.40 | 0.69 | 0.51 | 0.55 | 100.0 | 8.0 | 12.0 |
sec | 2002_05 | dssp | 1l1s:A | 76.6 | 71 | 84 | 81 | 81 | 81 | 65 | 85.0 | 82 | 92 | 82 | 5.4 | 0.38 | 0.39 | 0.38 | 0.60 | 0.75 | 0.59 | 100.0 | 7.0 | 0.00 |
sec | 2002_05 | dssp | 1ldj:A | 89.1 | 95 | 90 | 0 | 0 | 71 | 83 | 95.2 | 100 | 100 | 81 | 0.0 | 0.41 | 0.40 | 0.43 | 0.70 | 1.0 | 0.70 | 100.0 | 3.0 | 0.00 |
sec | 2002_05 | dssp | 1ldj:B | 72.7 | 63 | 77 | 75 | 53 | 73 | 82 | 51.1 | 63 | 53 | 48 | 0.0 | 0.29 | 0.30 | 0.29 | 0.66 | 0.50 | 0.43 | 100.0 | 2.0 | 9.0 |
sec | 2002_05 | dssp | 1ldv:A | 56.1 | 18 | 28 | 13 | 47 | 83 | 60 | 11.6 | 11 | 9 | 12 | 0.7 | 0.04 | 0.03 | 0.05 | 0.12 | 0.13 | 0.00 | 100.0 | 4.0 | 18.0 |
sec | 2002_05 | dssp | 1lgj:A | 63.7 | 68 | 73 | 0 | 0 | 55 | 50 | 62.0 | 68 | 100 | 49 | 0.0 | 0.04 | 0.04 | 0.04 | 0.23 | 1.0 | 0.23 | 100.0 | 4.0 | 0.00 |
sec | 2002_05 | dssp | 1lgo:A | 61.9 | 64 | 85 | 0 | 0 | 56 | 56 | 60.3 | 68 | 100 | 45 | 8.3 | 0.11 | 0.14 | 0.09 | 0.41 | 1.0 | 0.34 | 0.0 | 16.0 | 16.0 |
sec | 2002_05 | dssp | 1lgz:A | 74.4 | 70 | 82 | 0 | 0 | 80 | 66 | 67.8 | 63 | 100 | 74 | 0.0 | 0.18 | 0.19 | 0.19 | 0.49 | 1.0 | 0.49 | 100.0 | 8.0 | 0.00 |
sec | 2002_05 | dssp | 1lh8:A | 58.9 | 54 | 91 | 0 | 0 | 75 | 33 | 73.8 | 77 | 100 | 61 | 2.7 | 0.07 | 0.09 | 0.06 | 0.29 | 1.0 | 0.27 | 100.0 | 31.0 | 4.0 |
sec | 2002_05 | dssp | 1li1:A | 72.8 | 34 | 50 | 59 | 92 | 94 | 66 | 65.9 | 38 | 58 | 82 | 3.0 | 0.30 | 0.28 | 0.32 | 0.36 | 0.60 | 0.56 | 100.0 | 3.0 | 15.0 |
sec | 2002_05 | dssp | 1li5:A | 80.4 | 81 | 90 | 71 | 82 | 83 | 71 | 74.6 | 90 | 81 | 57 | 0.6 | 0.46 | 0.46 | 0.46 | 0.76 | 0.71 | 0.61 | 100.0 | 3.0 | 2.0 |
sec | 2002_05 | dssp | 1lja:A | 71.9 | 83 | 78 | 0 | 0 | 44 | 52 | 44.3 | 45 | 100 | 40 | 0.0 | 0.06 | 0.07 | 0.07 | 0.29 | 1.0 | 0.29 | 100.0 | 4.0 | 0.00 |
sec | 2002_05 | dssp | 1lk8:A | 42.8 | 43 | 34 | 29 | 31 | 47 | 54 | 37.7 | 36 | 31 | 40 | 9.8 | 0.01 | 0.01 | 0.01 | 0.05 | 0.16 | 0.05 | 100.0 | 7.0 | 0.00 |
sec | 2002_05 | dssp | 1ll3:A | 76.0 | 73 | 95 | 55 | 74 | 89 | 64 | 77.8 | 82 | 63 | 80 | 0.8 | 0.40 | 0.40 | 0.42 | 0.75 | 0.56 | 0.56 | 100.0 | 9.0 | 5.0 |
sec | 2002_05 | dssp | 1ln4:A | 89.8 | 92 | 100 | 85 | 80 | 89 | 85 | 82.7 | 82 | 100 | 76 | 0.0 | 0.69 | 0.70 | 0.69 | 0.93 | 0.78 | 0.78 | 0.0 | 3.0 | 1.0 |
sec | 2002_05 | dssp | 1lpl:A | 82.1 | 81 | 100 | 67 | 80 | 90 | 80 | 90.1 | 100 | 81 | 93 | 0.0 | 0.48 | 0.46 | 0.50 | 0.89 | 0.63 | 0.63 | 100.0 | 2.0 | 5.0 |
sec | 2002_05 | dssp | 1lr0:A | 73.8 | 65 | 92 | 73 | 100 | 90 | 50 | 45.3 | 34 | 95 | 69 | 0.7 | 0.43 | 0.43 | 0.43 | 0.59 | 0.83 | 0.52 | 100.0 | 15.0 | 4.0 |
sec | 2002_05 | dssp | 1lu7:A | 58.8 | 90 | 66 | 33 | 17 | 37 | 74 | 43.6 | 48 | 18 | 44 | 4.4 | 0.19 | 0.20 | 0.19 | 0.57 | 0.12 | 0.29 | 100.0 | 15.0 | 9.0 |
sec | 2002_05 | dssp | THIS_month:psum | 73.4 | 68 | 73 | 45 | 53 | 76 | 68 | 68.5 | 68.4 | 74.2 | 69.5 | 2.1 | 0.31 | 0.31 | 0.31 | 0.57 | 0.68 | 0.48 | 92.1 | 6.5 | 5.6 |
sec | 2002_05 | 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_05 | 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_05 | 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) ) |