METHOD about: | ../../../doc/explain_methods.html#PX_about_samt99_sec |
METHOD url: | SAM-T99sec |
TYPE : | sec |
NPROT : | 543 |
NWEEKS : | 100 |
NOTE 1 : | here ALL results obtained for SAM-T99sec 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 | 75.5 | 84 | 77 | 63 | 77 | 74 | 72 | 70.8 | 74.4 | 70.9 | 65.2 | 2.2 | 0.36 | 0.35 | 0.37 | 0.69 | 0.63 | 0.54 | 8379.3 | 6.7 | 5.5 |
sec | 2002_05 | dssp | ALL_proteins:sig | 10.0 | 32 | 30 | 34 | 40 | 17 | 15 | 14.6 | 25.7 | 26.7 | 17.6 | 3.8 | 0.25 | 0.16 | 0.44 | 0.26 | 0.25 | 0.18 | 8303.3 | 8.0 | 6.4 |
sec | 2002_05 | dssp | ALL_proteins:errsig | 0.43 | 1 | 1 | 1 | 1 | 0.75 | 0.67 | 0.62 | 1.1 | 1.1 | 0.75 | 0.16 | 0.01 | 0.00 | 0.01 | 0.01 | 0.01 | 0.00 | 356.3 | 0.34 | 0.27 |
sec | 2002_05 | dssp | THIS_month:psum | 71.2 | 68 | 69 | 39 | 48 | 69 | 68 | 61.7 | 65.2 | 71.1 | 59.7 | 2.2 | 0.29 | 0.28 | 0.29 | 0.53 | 0.67 | 0.42 | 86.9 | 7.4 | 7.2 |
sec | 2002_05 | dssp | 1cix:A | 56.8 | 0 | 0 | 9 | 25 | 72 | 70 | 38.0 | 100 | 9 | 47 | 0.0 | 0.06 | 0.08 | 0.06 | 1.0 | 0.00 | -0.18 | 100.0 | 13.0 | 15.0 |
sec | 2002_05 | dssp | 1i36:A | 76.4 | 78 | 86 | 80 | 87 | 70 | 57 | 78.3 | 79 | 86 | 72 | 0.0 | 0.39 | 0.40 | 0.40 | 0.61 | 0.81 | 0.46 | 100.0 | 5.0 | 1.0 |
sec | 2002_05 | dssp | 1iko:P | 73.8 | 14 | 100 | 83 | 62 | 78 | 81 | 64.6 | 21 | 76 | 65 | 2.8 | 0.25 | 0.23 | 0.27 | 0.36 | 0.57 | 0.51 | 100.0 | 8.0 | 10.0 |
sec | 2002_05 | dssp | 1jjv:A | 88.7 | 97 | 85 | 95 | 100 | 68 | 90 | 83.5 | 83 | 100 | 76 | 0.0 | 0.65 | 0.63 | 0.68 | 0.78 | 0.97 | 0.72 | 100.0 | 7.0 | 0.00 |
sec | 2002_05 | dssp | 1k3r:B | 79.5 | 83 | 80 | 78 | 76 | 77 | 80 | 78.5 | 83 | 79 | 75 | 0.3 | 0.43 | 0.44 | 0.44 | 0.74 | 0.70 | 0.59 | 100.0 | 1.0 | 0.00 |
sec | 2002_05 | dssp | 1k45:A | 68.5 | 50 | 20 | 51 | 87 | 85 | 66 | 58.7 | 40 | 58 | 59 | 3.5 | 0.19 | 0.19 | 0.18 | 0.27 | 0.50 | 0.45 | 0.0 | 5.0 | 19.0 |
sec | 2002_05 | dssp | 1kpp:A | 72.2 | 86 | 76 | 56 | 58 | 71 | 75 | 65.5 | 78 | 40 | 69 | 0.0 | 0.35 | 0.36 | 0.35 | 0.74 | 0.46 | 0.44 | 100.0 | 3.0 | 0.00 |
sec | 2002_05 | dssp | 1kr7:A | 89.1 | 100 | 86 | 0 | 0 | 60 | 100 | 83.7 | 88 | 100 | 70 | 0.0 | 0.51 | 0.45 | 0.59 | 0.72 | 1.0 | 0.72 | 100.0 | 10.0 | 0.00 |
sec | 2002_05 | dssp | 1ktg:A | 78.8 | 92 | 97 | 58 | 100 | 97 | 56 | 81.2 | 92 | 75 | 79 | 0.0 | 0.60 | 0.60 | 0.61 | 0.92 | 0.66 | 0.61 | 100.0 | 1.0 | 18.0 |
sec | 2002_05 | dssp | 1kuu:A | 76.2 | 70 | 87 | 69 | 87 | 85 | 66 | 72.4 | 78 | 81 | 63 | 0.0 | 0.41 | 0.40 | 0.43 | 0.74 | 0.66 | 0.54 | 100.0 | 3.0 | 7.0 |
sec | 2002_05 | dssp | 1kv4:A | 73.8 | 63 | 100 | 0 | 0 | 100 | 63 | 38.2 | 30 | 100 | 100 | 9.5 | 0.41 | 0.50 | 0.32 | 0.57 | 1.0 | 0.69 | 100.0 | 26.0 | 9.0 |
sec | 2002_05 | dssp | 1l1d:B | 74.8 | 66 | 89 | 55 | 68 | 91 | 72 | 67.0 | 62 | 52 | 78 | 4.7 | 0.37 | 0.36 | 0.40 | 0.70 | 0.49 | 0.61 | 100.0 | 6.0 | 5.0 |
sec | 2002_05 | dssp | 1l1s:A | 84.7 | 86 | 86 | 88 | 85 | 78 | 80 | 87.8 | 83 | 92 | 91 | 3.6 | 0.51 | 0.52 | 0.51 | 0.74 | 0.83 | 0.71 | 100.0 | 0.00 | 0.00 |
sec | 2002_05 | dssp | 1ldj:A | 80.0 | 100 | 77 | 0 | 0 | 33 | 100 | 85.0 | 100 | 100 | 50 | 0.0 | 0.31 | 0.22 | 0.41 | 0.50 | 1.0 | 0.50 | 100.0 | 20.0 | 0.00 |
sec | 2002_05 | dssp | 1ldj:B | 61.4 | 63 | 38 | 15 | 37 | 77 | 70 | 48.7 | 63 | 16 | 54 | 3.4 | 0.09 | 0.09 | 0.10 | 0.40 | 0.11 | 0.20 | 100.0 | 7.0 | 13.0 |
sec | 2002_05 | dssp | 1ldv:A | 53.4 | 18 | 17 | 14 | 55 | 78 | 60 | 12.4 | 13 | 11 | 12 | 2.6 | 0.03 | 0.03 | 0.04 | 0.03 | 0.18 | 0.01 | 100.0 | 0.00 | 18.0 |
sec | 2002_05 | dssp | 1lgj:A | 58.3 | 72 | 65 | 0 | 0 | 32 | 40 | 50.7 | 72 | 100 | 20 | 0.0 | 0.00 | 0.00 | 0.00 | 0.06 | 1.0 | 0.06 | 100.0 | 7.0 | 0.00 |
sec | 2002_05 | dssp | 1lgo:A | 56.8 | 67 | 76 | 0 | 0 | 35 | 45 | 46.5 | 55 | 100 | 30 | 6.4 | 0.05 | 0.06 | 0.04 | 0.26 | 1.0 | 0.14 | 0.0 | 7.0 | 14.0 |
sec | 2002_05 | dssp | 1lgz:A | 72.0 | 74 | 76 | 0 | 0 | 68 | 66 | 57.0 | 55 | 100 | 59 | 0.0 | 0.13 | 0.14 | 0.14 | 0.42 | 1.0 | 0.42 | 100.0 | 1.0 | 0.00 |
sec | 2002_05 | dssp | 1li1:A | 64.0 | 47 | 28 | 40 | 88 | 90 | 65 | 58.1 | 45 | 47 | 70 | 9.6 | 0.20 | 0.20 | 0.21 | 0.28 | 0.44 | 0.51 | 100.0 | 6.0 | 24.0 |
sec | 2002_05 | dssp | 1lja:A | 69.9 | 84 | 75 | 0 | 0 | 35 | 48 | 56.8 | 66 | 100 | 32 | 0.0 | 0.04 | 0.04 | 0.04 | 0.21 | 1.0 | 0.21 | 100.0 | 7.0 | 0.00 |
sec | 2002_05 | dssp | 1lr0:A | 76.2 | 70 | 90 | 86 | 95 | 81 | 52 | 71.2 | 64 | 95 | 77 | 0.0 | 0.46 | 0.48 | 0.46 | 0.61 | 0.89 | 0.50 | 100.0 | 12.0 | 1.0 |
sec | 2002_05 | dssp | 1lu7:A | 53.3 | 88 | 62 | 37 | 16 | 27 | 66 | 37.1 | 51 | 19 | 27 | 4.4 | 0.17 | 0.18 | 0.17 | 0.51 | 0.11 | 0.17 | 0.0 | 16.0 | 12.0 |
sec | 2002_05 | dssp | THIS_month:psum | 71.2 | 68 | 69 | 39 | 48 | 69 | 68 | 61.7 | 65.2 | 71.1 | 59.7 | 2.2 | 0.29 | 0.28 | 0.29 | 0.53 | 0.67 | 0.42 | 86.9 | 7.4 | 7.2 |
sec | 2002_05 | dssp | ALL_proteins:psum | 75.5 | 84 | 77 | 63 | 77 | 74 | 72 | 70.8 | 74.4 | 70.9 | 65.2 | 2.2 | 0.36 | 0.35 | 0.37 | 0.69 | 0.63 | 0.54 | 8379.3 | 6.7 | 5.5 |
sec | 2002_05 | dssp | ALL_proteins:sig | 10.0 | 32 | 30 | 34 | 40 | 17 | 15 | 14.6 | 25.7 | 26.7 | 17.6 | 3.8 | 0.25 | 0.16 | 0.44 | 0.26 | 0.25 | 0.18 | 8303.3 | 8.0 | 6.4 |
sec | 2002_05 | dssp | ALL_proteins:errsig | 0.43 | 1 | 1 | 1 | 1 | 0.75 | 0.67 | 0.62 | 1.1 | 1.1 | 0.75 | 0.16 | 0.01 | 0.00 | 0.01 | 0.01 | 0.01 | 0.00 | 356.3 | 0.34 | 0.27 |
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) ) |