METHOD about: | ../../../doc/explain_methods.html#PX_about_samt99_sec |
METHOD url: | SAM-T99sec |
TYPE : | sec |
NPROT : | 329 |
NWEEKS : | 86 |
NOTE 1 : | here ALL results obtained for SAM-T99sec in month 2003_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 | 2003_11 | dssp | ALL_proteins:psum | 75.4 | 84 | 78 | 63 | 74 | 74 | 73 | 71.4 | 76.7 | 73.0 | 66.6 | 2.7 | 0.35 | 0.36 | 0.35 | 0.69 | 0.61 | 0.54 | 8632.2 | 7.3 | 6.4 |
sec | 2003_11 | dssp | ALL_proteins:sig | 10.7 | 34 | 32 | 38 | 44 | 17 | 15 | 15.5 | 26.1 | 27.4 | 18.7 | 4.8 | 0.17 | 0.17 | 0.17 | 0.25 | 0.28 | 0.19 | 8558.9 | 7.7 | 7.1 |
sec | 2003_11 | dssp | ALL_proteins:errsig | 0.59 | 1 | 1 | 2 | 2 | 0.97 | 0.84 | 0.85 | 1.4 | 1.5 | 1.0 | 0.26 | 0.01 | 0.01 | 0.01 | 0.01 | 0.01 | 0.01 | 471.8 | 0.42 | 0.39 |
sec | 2003_11 | dssp | THIS_month:psum | 76.1 | 73 | 69 | 29 | 42 | 70 | 72 | 76.3 | 83.9 | 76.2 | 68.0 | 3.1 | 0.34 | 0.34 | 0.33 | 0.63 | 0.72 | 0.57 | 90.4 | 7.6 | 7.7 |
sec | 2003_11 | dssp | 1kg1:A | 60.0 | 0 | 0 | 34 | 75 | 79 | 69 | 53.9 | 100 | 42 | 62 | 8.3 | 0.08 | 0.10 | 0.08 | 1.0 | 0.31 | 0.34 | 100.0 | 15.0 | 23.0 |
sec | 2003_11 | dssp | 1kom:A | 65.6 | 88 | 40 | 31 | 92 | 89 | 68 | 66.5 | 100 | 39 | 81 | 8.6 | 0.25 | 0.24 | 0.26 | 0.53 | 0.42 | 0.50 | 100.0 | 11.0 | 26.0 |
sec | 2003_11 | dssp | 1lmm:A | 82.5 | 0 | 0 | 33 | 75 | 96 | 90 | 73.0 | 100 | 44 | 81 | 7.5 | 0.40 | 0.42 | 0.39 | 1.0 | 0.41 | 0.69 | 100.0 | 7.0 | 12.0 |
sec | 2003_11 | dssp | 1mwq:A | 81.8 | 91 | 91 | 70 | 92 | 83 | 65 | 80.6 | 76 | 88 | 76 | 0.0 | 0.55 | 0.55 | 0.56 | 0.86 | 0.72 | 0.60 | 100.0 | 0.00 | 8.0 |
sec | 2003_11 | dssp | 1mww:A | 75.0 | 78 | 85 | 68 | 96 | 76 | 54 | 76.5 | 88 | 80 | 58 | 0.0 | 0.44 | 0.44 | 0.45 | 0.69 | 0.75 | 0.46 | 0.0 | 3.0 | 8.0 |
sec | 2003_11 | dssp | 1n6j:G | 76.9 | 100 | 66 | 0 | 0 | 57 | 100 | 76.9 | 100 | 100 | 57 | 0.0 | 0.38 | 0.36 | 0.40 | 0.61 | 1.0 | 0.61 | 100.0 | 23.0 | 0.00 |
sec | 2003_11 | dssp | 1oa8:A | 67.2 | 50 | 92 | 56 | 81 | 86 | 56 | 61.6 | 58 | 54 | 71 | 0.7 | 0.28 | 0.26 | 0.30 | 0.63 | 0.51 | 0.42 | 100.0 | 8.0 | 12.0 |
sec | 2003_11 | dssp | 1oh1:A | 81.7 | 50 | 42 | 77 | 85 | 88 | 83 | 89.3 | 62 | 88 | 92 | 2.7 | 0.42 | 0.43 | 0.43 | 0.42 | 0.69 | 0.68 | 100.0 | 0.00 | 3.0 |
sec | 2003_11 | dssp | 1oqj:A | 62.2 | 47 | 64 | 37 | 50 | 83 | 65 | 59.8 | 42 | 41 | 79 | 8.8 | 0.16 | 0.15 | 0.17 | 0.43 | 0.26 | 0.44 | 100.0 | 6.0 | 6.0 |
sec | 2003_11 | dssp | 1p68:A | 78.4 | 94 | 77 | 0 | 0 | 48 | 80 | 76.7 | 82 | 100 | 65 | 0.0 | 0.21 | 0.19 | 0.24 | 0.50 | 1.0 | 0.50 | 100.0 | 13.0 | 0.00 |
sec | 2003_11 | dssp | 1pi7:A | 89.5 | 100 | 89 | 0 | 0 | 0 | 0 | 89.5 | 100 | 100 | 0 | 0.0 | 0.00 | 0.00 | 0.00 | 0.00 | 1.0 | 1.0 | 100.0 | 10.0 | 0.00 |
sec | 2003_11 | dssp | 1px5:A | 83.3 | 91 | 90 | 71 | 70 | 77 | 79 | 86.2 | 92 | 86 | 76 | 1.2 | 0.48 | 0.48 | 0.48 | 0.81 | 0.65 | 0.66 | 100.0 | 0.00 | 0.00 |
sec | 2003_11 | dssp | 1q68:A | 71.1 | 100 | 47 | 0 | 0 | 60 | 100 | 66.2 | 71 | 100 | 64 | 0.0 | 0.30 | 0.34 | 0.28 | 0.53 | 1.0 | 0.53 | 100.0 | 28.0 | 0.00 |
sec | 2003_11 | dssp | 1r5r:A | 90.6 | 96 | 94 | 50 | 25 | 82 | 89 | 89.6 | 100 | 25 | 76 | 0.0 | 0.59 | 0.61 | 0.58 | 0.86 | 0.33 | 0.78 | 100.0 | 0.00 | 1.0 |
sec | 2003_11 | dssp | 1rif:A | 68.8 | 79 | 69 | 44 | 78 | 70 | 65 | 66.8 | 83 | 50 | 59 | 4.6 | 0.24 | 0.23 | 0.25 | 0.55 | 0.52 | 0.45 | 100.0 | 5.0 | 8.0 |
sec | 2003_11 | dssp | 1uf3:A | 76.8 | 85 | 83 | 58 | 80 | 85 | 70 | 74.5 | 90 | 65 | 69 | 3.5 | 0.39 | 0.39 | 0.40 | 0.77 | 0.57 | 0.60 | 100.0 | 0.00 | 8.0 |
sec | 2003_11 | dssp | 1ujl:A | 66.7 | 57 | 50 | 0 | 0 | 71 | 76 | 66.3 | 42 | 100 | 78 | 0.0 | 0.05 | 0.06 | 0.06 | 0.27 | 1.0 | 0.27 | 100.0 | 4.0 | 0.00 |
sec | 2003_11 | dssp | 1um3:E | 59.4 | 77 | 100 | 0 | 0 | 20 | 50 | 72.9 | 100 | 100 | 13 | 9.3 | 0.44 | 0.54 | 0.34 | 0.71 | 1.0 | 0.15 | 100.0 | 15.0 | 34.0 |
sec | 2003_11 | dssp | 1um3:F | 97.0 | 100 | 96 | 0 | 0 | 85 | 100 | 100.0 | 100 | 100 | 100 | 0.0 | 0.78 | 0.75 | 0.82 | 0.90 | 1.0 | 0.90 | 100.0 | 3.0 | 0.00 |
sec | 2003_11 | dssp | 1upt:B | 86.2 | 91 | 91 | 0 | 0 | 69 | 81 | 98.3 | 100 | 100 | 92 | 3.4 | 0.36 | 0.39 | 0.33 | 0.60 | 1.0 | 0.68 | 100.0 | 0.00 | 3.0 |
sec | 2003_11 | dssp | 1uqv:A | 77.6 | 73 | 90 | 0 | 0 | 83 | 83 | 78.2 | 76 | 100 | 80 | 8.2 | 0.35 | 0.41 | 0.29 | 0.61 | 1.0 | 0.71 | 0.0 | 10.0 | 10.0 |
sec | 2003_11 | dssp | THIS_month:psum | 76.1 | 73 | 69 | 29 | 42 | 70 | 72 | 76.3 | 83.9 | 76.2 | 68.0 | 3.1 | 0.34 | 0.34 | 0.33 | 0.63 | 0.72 | 0.57 | 90.4 | 7.6 | 7.7 |
sec | 2003_11 | dssp | ALL_proteins:psum | 75.4 | 84 | 78 | 63 | 74 | 74 | 73 | 71.4 | 76.7 | 73.0 | 66.6 | 2.7 | 0.35 | 0.36 | 0.35 | 0.69 | 0.61 | 0.54 | 8632.2 | 7.3 | 6.4 |
sec | 2003_11 | dssp | ALL_proteins:sig | 10.7 | 34 | 32 | 38 | 44 | 17 | 15 | 15.5 | 26.1 | 27.4 | 18.7 | 4.8 | 0.17 | 0.17 | 0.17 | 0.25 | 0.28 | 0.19 | 8558.9 | 7.7 | 7.1 |
sec | 2003_11 | dssp | ALL_proteins:errsig | 0.59 | 1 | 1 | 2 | 2 | 0.97 | 0.84 | 0.85 | 1.4 | 1.5 | 1.0 | 0.26 | 0.01 | 0.01 | 0.01 | 0.01 | 0.01 | 0.01 | 471.8 | 0.42 | 0.39 |
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) ) |