METHOD about: | ../../doc/explain_method2.html#PX_about_SAM-T99sec |
METHOD url: | SAM-T99sec |
TYPE : | sec |
NPROT : | 128 |
NWEEKS : | 23 |
NOTE 1 : | here ALL results obtained for samt99_sec in month 2000_11 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 | 2000_11 | dssp | ALL_proteins:psum | 76.6 | 74 | 48 | 71 | 69 | 59 | 74 | 71.4 | 76.1 | 66.9 | 64.7 | 2.0 | 0.35 | 0.33 | 0.36 | 0.66 | 0.63 | 0.53 | 8125.0 | 6.3 | 5.0 |
sec | 2000_11 | dssp | ALL_proteins:sig | 9.8 | 29 | 29 | 19 | 28 | 34 | 16 | 14.6 | 24.4 | 27.1 | 19.2 | 3.3 | 0.15 | 0.16 | 0.16 | 0.22 | 0.25 | 0.17 | 8075.4 | 8.5 | 5.7 |
sec | 2000_11 | dssp | ALL_proteins:errsig | 0.87 | 2 | 2 | 1 | 2 | 3 | 1 | 1.2 | 2.1 | 2.4 | 1.7 | 0.29 | 0.01 | 0.01 | 0.01 | 0.02 | 0.02 | 0.01 | 713.7 | 0.75 | 0.50 |
sec | 2000_11 | dssp | THIS_month:psum | 76.3 | 73 | 39 | 63 | 65 | 43 | 83 | 70.1 | 75 | 73.0 | 59.6 | 0.60 | 0.34 | 0.30 | 0.37 | 0.64 | 0.74 | 0.49 | 95.2 | 11.8 | 2.4 |
sec | 2000_11 | dssp | 1by6:A | 30.6 | 83 | 0 | 20 | 17 | 0 | 85 | 12.9 | 17 | 100 | 12 | 0.0 | 0.00 | 0.00 | 0.00 | 0.03 | 1.0 | 0.03 | 100.0 | 63.0 | 0.00 |
sec | 2000_11 | dssp | 1dh3:A | 89.1 | 100 | 0 | 14 | 88 | 0 | 100 | 89.1 | 100 | 100 | 14 | 0.0 | 0.26 | 0.10 | 0.42 | 0.35 | 1.0 | 0.35 | 100.0 | 10.0 | 0.00 |
sec | 2000_11 | dssp | 1e0f:I | 71.9 | 0 | 22 | 81 | 0 | 28 | 84 | 48.4 | 100 | 13 | 53 | 0.0 | 0.03 | 0.04 | 0.03 | 1.0 | 0.13 | 0.03 | 100.0 | 7.0 | 3.0 |
sec | 2000_11 | dssp | 1e5d:A | 84.5 | 88 | 77 | 84 | 93 | 85 | 75 | 88.7 | 95 | 88 | 80 | 0.0 | 0.56 | 0.56 | 0.57 | 0.85 | 0.75 | 0.67 | 100.0 | 2.0 | 2.0 |
sec | 2000_11 | dssp | 1e79:I | 55.3 | 100 | 100 | 30 | 43 | 50 | 100 | 54.8 | 84 | 66 | 40 | 0.0 | 0.32 | 0.33 | 0.32 | 0.44 | 0.68 | 0.36 | 100.0 | 38.0 | 6.0 |
sec | 2000_11 | dssp | 1e96:B | 78.3 | 100 | 0 | 40 | 75 | 0 | 100 | 72.7 | 84 | 0 | 54 | 3.2 | 0.33 | 0.22 | 0.45 | 0.52 | 1.0 | 0.56 | 100.0 | 21.0 | 3.0 |
sec | 2000_11 | dssp | 1ehx:A | 75.5 | 41 | 76 | 83 | 83 | 72 | 76 | 78.3 | 50 | 80 | 83 | 3.1 | 0.29 | 0.28 | 0.31 | 0.55 | 0.59 | 0.57 | 100.0 | 6.0 | 2.0 |
sec | 2000_11 | dssp | 1ev0:A | 75.9 | 66 | 66 | 94 | 93 | 100 | 58 | 79.9 | 71 | 94 | 75 | 0.0 | 0.48 | 0.47 | 0.51 | 0.70 | 0.76 | 0.57 | 100.0 | 10.0 | 10.0 |
sec | 2000_11 | dssp | 1f16:A | 89.6 | 99 | 0 | 72 | 86 | 0 | 98 | 87.7 | 91 | 100 | 81 | 0.0 | 0.55 | 0.52 | 0.58 | 0.78 | 1.0 | 0.78 | 100.0 | 9.0 | 0.00 |
sec | 2000_11 | dssp | 1faf:A | 87.3 | 93 | 0 | 76 | 86 | 0 | 88 | 83.8 | 93 | 100 | 70 | 0.0 | 0.43 | 0.43 | 0.45 | 0.72 | 1.0 | 0.72 | 100.0 | 5.0 | 0.00 |
sec | 2000_11 | dssp | 1fd3:A | 68.3 | 0 | 61 | 90 | 0 | 80 | 64 | 65.5 | 0 | 72 | 79 | 0.0 | 0.25 | 0.18 | 0.33 | 1.0 | 0.58 | 0.38 | 100.0 | 14.0 | 7.0 |
sec | 2000_11 | dssp | 1fi2:A | 77.6 | 55 | 81 | 82 | 51 | 94 | 78 | 72.4 | 55 | 86 | 70 | 0.9 | 0.41 | 0.41 | 0.42 | 0.43 | 0.83 | 0.56 | 100.0 | 1.0 | 3.0 |
sec | 2000_11 | dssp | 1fp3:A | 74.9 | 84 | 43 | 67 | 83 | 54 | 64 | 74.1 | 88 | 26 | 62 | 2.4 | 0.26 | 0.26 | 0.27 | 0.61 | 0.44 | 0.49 | 100.0 | 0.00 | 1.0 |
sec | 2000_11 | dssp | 1fs1:A | 78.0 | 100 | 0 | 40 | 74 | 0 | 100 | 68.8 | 77 | 100 | 53 | 0.0 | 0.33 | 0.26 | 0.41 | 0.54 | 1.0 | 0.54 | 100.0 | 21.0 | 0.00 |
sec | 2000_11 | dssp | 1fy7:A | 75.1 | 86 | 65 | 71 | 84 | 68 | 70 | 73.3 | 90 | 68 | 62 | 1.8 | 0.37 | 0.38 | 0.38 | 0.77 | 0.55 | 0.51 | 100.0 | 0.00 | 1.0 |
sec | 2000_11 | dssp | 1fyw:A | 71.8 | 84 | 82 | 55 | 69 | 73 | 74 | 69.1 | 67 | 88 | 63 | 1.3 | 0.33 | 0.34 | 0.34 | 0.56 | 0.73 | 0.44 | 100.0 | 8.0 | 2.0 |
sec | 2000_11 | dssp | 1g1p:A | 84.4 | 0 | 57 | 92 | 0 | 66 | 88 | 63.6 | 100 | 34 | 71 | 0.0 | 0.22 | 0.22 | 0.24 | 1.0 | 0.52 | 0.52 | 100.0 | 0.00 | 3.0 |
sec | 2000_11 | dssp | 1g25:A | 83.1 | 69 | 37 | 95 | 100 | 60 | 82 | 73.2 | 69 | 44 | 79 | 0.0 | 0.44 | 0.39 | 0.50 | 0.80 | 0.41 | 0.59 | 100.0 | 6.0 | 4.0 |
sec | 2000_11 | dssp | 1g2i:A | 81.3 | 89 | 69 | 81 | 89 | 87 | 70 | 81.9 | 97 | 75 | 68 | 0.0 | 0.51 | 0.51 | 0.52 | 0.82 | 0.71 | 0.60 | 0.0 | 0.00 | 5.0 |
sec | 2000_11 | dssp | 1g7d:A | 84.9 | 100 | 0 | 56 | 81 | 0 | 100 | 78.1 | 82 | 100 | 70 | 0.0 | 0.46 | 0.40 | 0.52 | 0.67 | 1.0 | 0.67 | 100.0 | 15.0 | 0.00 |
sec | 2000_11 | dssp | 1qoj:A | 86.7 | 100 | 0 | 14 | 86 | 0 | 100 | 57.1 | 65 | 100 | 14 | 0.0 | 0.24 | 0.10 | 0.40 | 0.35 | 1.0 | 0.35 | 100.0 | 13.0 | 0.00 |
sec | 2000_11 | dssp | THIS_month:psum | 76.3 | 73 | 39 | 63 | 65 | 43 | 83 | 70.1 | 75 | 73.0 | 59.6 | 0.60 | 0.34 | 0.30 | 0.37 | 0.64 | 0.74 | 0.49 | 95.2 | 11.8 | 2.4 |
sec | 2000_11 | dssp | ALL_proteins:psum | 76.6 | 74 | 48 | 71 | 69 | 59 | 74 | 71.4 | 76.1 | 66.9 | 64.7 | 2.0 | 0.35 | 0.33 | 0.36 | 0.66 | 0.63 | 0.53 | 8125.0 | 6.3 | 5.0 |
sec | 2000_11 | dssp | ALL_proteins:sig | 9.8 | 29 | 29 | 19 | 28 | 34 | 16 | 14.6 | 24.4 | 27.1 | 19.2 | 3.3 | 0.15 | 0.16 | 0.16 | 0.22 | 0.25 | 0.17 | 8075.4 | 8.5 | 5.7 |
sec | 2000_11 | dssp | ALL_proteins:errsig | 0.87 | 2 | 2 | 1 | 2 | 3 | 1 | 1.2 | 2.1 | 2.4 | 1.7 | 0.29 | 0.01 | 0.01 | 0.01 | 0.02 | 0.02 | 0.01 | 713.7 | 0.75 | 0.50 |
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) ) |