METHOD about: | ../../../doc/explain_methods.html#PX_about_profsec |
METHOD url: | PROFsec |
TYPE : | sec |
NPROT : | 1554 |
NWEEKS : | 107 |
NOTE 1 : | here ALL results obtained for PROFsec in month 2002_07 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_07 | dssp | ALL_proteins:psum | 76.7 | 79 | 83 | 70 | 72 | 77 | 73 | 73.0 | 71.2 | 72.5 | 68.8 | 2.2 | 0.37 | 0.37 | 0.38 | 0.70 | 0.63 | 0.56 | 8005.1 | 6.0 | 4.8 |
sec | 2002_07 | dssp | ALL_proteins:sig | 9.3 | 32 | 32 | 33 | 35 | 12 | 11 | 13.6 | 28.0 | 25.6 | 14.7 | 3.7 | 0.14 | 0.15 | 0.14 | 0.21 | 0.23 | 0.15 | 7927.7 | 7.2 | 5.9 |
sec | 2002_07 | dssp | ALL_proteins:errsig | 0.23 | 0.82 | 0.83 | 0.85 | 0.89 | 0.32 | 0.28 | 0.34 | 0.71 | 0.65 | 0.37 | 0.09 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 201.1 | 0.18 | 0.15 |
sec | 2002_07 | dssp | THIS_month:psum | 80.1 | 66 | 71 | 60 | 62 | 79 | 76 | 79.3 | 82.4 | 82.2 | 74.3 | 1.3 | 0.43 | 0.43 | 0.42 | 0.77 | 0.76 | 0.60 | 91.3 | 5.2 | 4.0 |
sec | 2002_07 | dssp | 1ifr:A | 85.8 | 0 | 0 | 85 | 85 | 86 | 86 | 84.0 | 100 | 87 | 81 | 0.0 | 0.41 | 0.41 | 0.41 | 1.0 | 0.71 | 0.71 | 100.0 | 0.00 | 0.00 |
sec | 2002_07 | dssp | 1ify:A | 85.7 | 93 | 90 | 0 | 0 | 73 | 87 | 84.9 | 100 | 100 | 66 | 0.0 | 0.47 | 0.51 | 0.44 | 0.78 | 1.0 | 0.69 | 100.0 | 2.0 | 4.0 |
sec | 2002_07 | dssp | 1ipa:A | 83.8 | 82 | 93 | 78 | 100 | 90 | 66 | 81.5 | 81 | 85 | 78 | 0.0 | 0.57 | 0.57 | 0.57 | 0.77 | 0.86 | 0.66 | 100.0 | 5.0 | 4.0 |
sec | 2002_07 | dssp | 1iu1:B | 83.7 | 0 | 0 | 90 | 87 | 85 | 79 | 83.4 | 0 | 97 | 76 | 0.0 | 0.45 | 0.41 | 0.50 | 1.0 | 0.77 | 0.67 | 100.0 | 4.0 | 1.0 |
sec | 2002_07 | dssp | 1j58:A | 72.0 | 65 | 57 | 69 | 83 | 76 | 69 | 69.1 | 69 | 65 | 72 | 2.1 | 0.28 | 0.29 | 0.29 | 0.53 | 0.63 | 0.48 | 100.0 | 2.0 | 6.0 |
sec | 2002_07 | dssp | 1j5p:A | 81.0 | 83 | 86 | 88 | 80 | 73 | 76 | 87.5 | 85 | 93 | 85 | 0.4 | 0.49 | 0.50 | 0.49 | 0.77 | 0.77 | 0.60 | 100.0 | 1.0 | 2.0 |
sec | 2002_07 | dssp | 1j5s:A | 84.0 | 89 | 92 | 62 | 57 | 81 | 78 | 82.3 | 96 | 67 | 68 | 0.4 | 0.47 | 0.48 | 0.47 | 0.80 | 0.56 | 0.67 | 100.0 | 1.0 | 0.00 |
sec | 2002_07 | dssp | 1j5w:B | 74.3 | 81 | 75 | 59 | 86 | 75 | 68 | 78.1 | 77 | 79 | 77 | 1.9 | 0.34 | 0.34 | 0.36 | 0.64 | 0.65 | 0.51 | 0.0 | 2.0 | 6.0 |
sec | 2002_07 | dssp | 1jmm:A | 73.7 | 48 | 78 | 74 | 74 | 82 | 72 | 64.8 | 44 | 72 | 68 | 2.1 | 0.30 | 0.29 | 0.32 | 0.55 | 0.61 | 0.52 | 100.0 | 6.0 | 0.00 |
sec | 2002_07 | dssp | 1k0h:A | 60.7 | 0 | 0 | 92 | 48 | 51 | 95 | 48.8 | 100 | 89 | 41 | 0.0 | 0.24 | 0.32 | 0.16 | 1.0 | 0.54 | 0.37 | 100.0 | 16.0 | 19.0 |
sec | 2002_07 | dssp | 1kam:C | 92.9 | 92 | 100 | 84 | 100 | 100 | 84 | 100.0 | 100 | 100 | 100 | 0.0 | 0.78 | 0.78 | 0.80 | 0.94 | 0.88 | 0.86 | 100.0 | 2.0 | 4.0 |
sec | 2002_07 | dssp | 1kc0:A | 82.5 | 87 | 94 | 62 | 77 | 86 | 74 | 73.7 | 88 | 67 | 61 | 0.3 | 0.50 | 0.50 | 0.52 | 0.84 | 0.63 | 0.65 | 100.0 | 3.0 | 3.0 |
sec | 2002_07 | dssp | 1key:B | 82.4 | 85 | 94 | 0 | 0 | 73 | 65 | 77.9 | 81 | 100 | 66 | 1.8 | 0.31 | 0.37 | 0.27 | 0.64 | 1.0 | 0.58 | 100.0 | 7.0 | 4.0 |
sec | 2002_07 | dssp | 1kkx:A | 81.4 | 88 | 79 | 0 | 0 | 73 | 92 | 79.3 | 91 | 100 | 69 | 2.9 | 0.36 | 0.40 | 0.34 | 0.64 | 1.0 | 0.69 | 100.0 | 5.0 | 3.0 |
sec | 2002_07 | dssp | 1kn6:A | 72.6 | 70 | 60 | 71 | 62 | 73 | 83 | 81.7 | 71 | 69 | 89 | 4.1 | 0.30 | 0.32 | 0.30 | 0.53 | 0.58 | 0.53 | 100.0 | 4.0 | 2.0 |
sec | 2002_07 | dssp | 1kq1:H | 84.8 | 78 | 91 | 90 | 83 | 78 | 83 | 85.7 | 78 | 85 | 92 | 4.5 | 0.54 | 0.53 | 0.55 | 0.81 | 0.73 | 0.73 | 100.0 | 3.0 | 4.0 |
sec | 2002_07 | dssp | 1l3l:A | 82.8 | 90 | 90 | 55 | 100 | 84 | 69 | 84.9 | 91 | 77 | 77 | 0.0 | 0.52 | 0.50 | 0.55 | 0.79 | 0.71 | 0.63 | 100.0 | 0.00 | 6.0 |
sec | 2002_07 | dssp | 1lj2:B | 92.7 | 96 | 97 | 66 | 80 | 82 | 73 | 98.0 | 100 | 85 | 92 | 0.0 | 0.61 | 0.62 | 0.62 | 0.86 | 0.71 | 0.73 | 0.0 | 0.00 | 0.00 |
sec | 2002_07 | dssp | 1ljo:A | 85.3 | 60 | 85 | 92 | 90 | 82 | 76 | 85.3 | 70 | 86 | 89 | 1.3 | 0.50 | 0.49 | 0.52 | 0.68 | 0.81 | 0.69 | 100.0 | 3.0 | 1.0 |
sec | 2002_07 | dssp | 1lqr:A | 57.1 | 0 | 0 | 0 | 0 | 66 | 83 | 33.6 | 100 | 0 | 37 | 2.8 | 0.01 | 0.01 | 0.01 | 1.0 | 1.0 | -0.10 | 100.0 | 31.0 | 14.0 |
sec | 2002_07 | dssp | 1lvf:A | 87.7 | 86 | 98 | 0 | 0 | 93 | 65 | 92.7 | 95 | 100 | 76 | 3.7 | 0.44 | 0.55 | 0.35 | 0.66 | 1.0 | 0.73 | 100.0 | 10.0 | 3.0 |
sec | 2002_07 | dssp | 1ly1:A | 77.6 | 71 | 95 | 90 | 66 | 82 | 65 | 81.5 | 80 | 100 | 75 | 1.9 | 0.42 | 0.44 | 0.41 | 0.68 | 0.73 | 0.57 | 100.0 | 13.0 | 4.0 |
sec | 2002_07 | dssp | 1m4v:A | 78.0 | 92 | 92 | 75 | 83 | 74 | 64 | 85.7 | 100 | 88 | 74 | 0.0 | 0.47 | 0.48 | 0.47 | 0.91 | 0.61 | 0.52 | 100.0 | 0.00 | 4.0 |
sec | 2002_07 | dssp | THIS_month:psum | 80.1 | 66 | 71 | 60 | 62 | 79 | 76 | 79.3 | 82.4 | 82.2 | 74.3 | 1.3 | 0.43 | 0.43 | 0.42 | 0.77 | 0.76 | 0.60 | 91.3 | 5.2 | 4.0 |
sec | 2002_07 | dssp | ALL_proteins:psum | 76.7 | 79 | 83 | 70 | 72 | 77 | 73 | 73.0 | 71.2 | 72.5 | 68.8 | 2.2 | 0.37 | 0.37 | 0.38 | 0.70 | 0.63 | 0.56 | 8005.1 | 6.0 | 4.8 |
sec | 2002_07 | dssp | ALL_proteins:sig | 9.3 | 32 | 32 | 33 | 35 | 12 | 11 | 13.6 | 28.0 | 25.6 | 14.7 | 3.7 | 0.14 | 0.15 | 0.14 | 0.21 | 0.23 | 0.15 | 7927.7 | 7.2 | 5.9 |
sec | 2002_07 | dssp | ALL_proteins:errsig | 0.23 | 0.82 | 0.83 | 0.85 | 0.89 | 0.32 | 0.28 | 0.34 | 0.71 | 0.65 | 0.37 | 0.09 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 201.1 | 0.18 | 0.15 |
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) ) |