METHOD about: | ../../../doc/explain_methods.html#PX_about_phdpsi |
METHOD url: | PHDpsi |
TYPE : | sec |
NPROT : | 1598 |
NWEEKS : | 109 |
NOTE 1 : | here ALL results obtained for PHDpsi 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 | 74.4 | 77 | 81 | 63 | 71 | 77 | 70 | 69.9 | 69.3 | 68.0 | 66.0 | 2.6 | 0.33 | 0.33 | 0.34 | 0.67 | 0.59 | 0.53 | 7997.5 | 6.8 | 5.6 |
sec | 2002_07 | dssp | ALL_proteins:sig | 9.7 | 32 | 32 | 31 | 35 | 13 | 12 | 13.8 | 28.0 | 26.1 | 14.7 | 4.3 | 0.24 | 0.27 | 0.22 | 0.22 | 0.25 | 0.15 | 7920.1 | 8.3 | 6.7 |
sec | 2002_07 | dssp | ALL_proteins:errsig | 0.24 | 0.80 | 0.81 | 0.79 | 0.88 | 0.34 | 0.30 | 0.34 | 0.70 | 0.65 | 0.37 | 0.11 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 198.1 | 0.20 | 0.16 |
sec | 2002_07 | dssp | THIS_month:psum | 76.4 | 63 | 68 | 54 | 65 | 77 | 71 | 75.2 | 79.3 | 76.5 | 69.5 | 1.4 | 0.37 | 0.37 | 0.37 | 0.71 | 0.69 | 0.54 | 78.2 | 5.6 | 6.3 |
sec | 2002_07 | dssp | 1ifr:A | 85.0 | 0 | 0 | 83 | 84 | 86 | 85 | 82.7 | 100 | 85 | 80 | 0.0 | 0.38 | 0.39 | 0.39 | 1.0 | 0.69 | 0.69 | 100.0 | 0.00 | 0.00 |
sec | 2002_07 | dssp | 1ify:A | 87.8 | 93 | 90 | 0 | 0 | 78 | 88 | 88.6 | 100 | 100 | 74 | 0.0 | 0.48 | 0.51 | 0.46 | 0.78 | 1.0 | 0.73 | 100.0 | 2.0 | 2.0 |
sec | 2002_07 | dssp | 1ipa:A | 79.4 | 85 | 85 | 64 | 90 | 80 | 66 | 72.2 | 71 | 71 | 75 | 2.9 | 0.41 | 0.41 | 0.42 | 0.70 | 0.71 | 0.60 | 100.0 | 0.00 | 5.0 |
sec | 2002_07 | dssp | 1iu1:B | 78.9 | 0 | 0 | 76 | 90 | 90 | 70 | 76.8 | 0 | 84 | 76 | 0.0 | 0.35 | 0.31 | 0.39 | 1.0 | 0.68 | 0.60 | 0.0 | 4.0 | 8.0 |
sec | 2002_07 | dssp | 1j58:A | 68.0 | 46 | 48 | 60 | 87 | 81 | 64 | 55.7 | 35 | 58 | 59 | 2.9 | 0.23 | 0.23 | 0.24 | 0.37 | 0.60 | 0.44 | 100.0 | 0.00 | 11.0 |
sec | 2002_07 | dssp | 1j5p:A | 79.1 | 76 | 84 | 85 | 83 | 77 | 72 | 83.4 | 83 | 89 | 79 | 0.9 | 0.44 | 0.45 | 0.45 | 0.70 | 0.77 | 0.58 | 0.0 | 3.0 | 0.00 |
sec | 2002_07 | dssp | 1j5s:A | 79.6 | 83 | 89 | 54 | 47 | 79 | 74 | 79.3 | 87 | 52 | 74 | 2.2 | 0.36 | 0.37 | 0.36 | 0.72 | 0.46 | 0.61 | 100.0 | 3.0 | 1.0 |
sec | 2002_07 | dssp | 1j5w:B | 72.3 | 76 | 74 | 59 | 86 | 75 | 65 | 77.6 | 76 | 79 | 77 | 1.9 | 0.31 | 0.31 | 0.33 | 0.60 | 0.65 | 0.48 | 0.0 | 0.00 | 6.0 |
sec | 2002_07 | dssp | 1jmm:A | 66.3 | 37 | 92 | 42 | 80 | 92 | 60 | 49.5 | 39 | 50 | 52 | 0.2 | 0.24 | 0.20 | 0.29 | 0.54 | 0.46 | 0.39 | 100.0 | 10.0 | 15.0 |
sec | 2002_07 | dssp | 1k0h:A | 65.0 | 0 | 0 | 92 | 52 | 57 | 96 | 46.9 | 100 | 91 | 40 | 0.0 | 0.26 | 0.35 | 0.18 | 1.0 | 0.57 | 0.41 | 100.0 | 14.0 | 17.0 |
sec | 2002_07 | dssp | 1kam:C | 90.5 | 100 | 86 | 92 | 92 | 81 | 92 | 97.6 | 100 | 100 | 93 | 0.0 | 0.71 | 0.72 | 0.71 | 0.89 | 0.88 | 0.79 | 100.0 | 4.0 | 0.00 |
sec | 2002_07 | dssp | 1kc0:A | 81.2 | 84 | 90 | 62 | 82 | 86 | 72 | 76.1 | 88 | 67 | 66 | 1.0 | 0.45 | 0.45 | 0.47 | 0.78 | 0.67 | 0.64 | 100.0 | 2.0 | 4.0 |
sec | 2002_07 | dssp | 1key:B | 77.8 | 79 | 95 | 0 | 0 | 71 | 70 | 82.2 | 81 | 100 | 83 | 8.1 | 0.29 | 0.37 | 0.23 | 0.59 | 1.0 | 0.61 | 0.0 | 12.0 | 11.0 |
sec | 2002_07 | dssp | 1kkx:A | 81.4 | 92 | 76 | 0 | 0 | 69 | 89 | 74.4 | 90 | 100 | 61 | 0.0 | 0.33 | 0.33 | 0.34 | 0.63 | 1.0 | 0.63 | 100.0 | 10.0 | 0.00 |
sec | 2002_07 | dssp | 1kn6:A | 75.3 | 70 | 54 | 71 | 83 | 78 | 84 | 80.4 | 78 | 71 | 83 | 4.1 | 0.34 | 0.35 | 0.34 | 0.48 | 0.72 | 0.58 | 100.0 | 6.0 | 2.0 |
sec | 2002_07 | dssp | 1kq1:H | 86.4 | 71 | 100 | 93 | 88 | 84 | 76 | 91.7 | 78 | 100 | 86 | 1.5 | 0.57 | 0.57 | 0.59 | 0.81 | 0.81 | 0.71 | 100.0 | 6.0 | 3.0 |
sec | 2002_07 | dssp | 1l3l:A | 80.3 | 88 | 85 | 61 | 100 | 76 | 67 | 83.2 | 91 | 80 | 71 | 0.0 | 0.47 | 0.46 | 0.49 | 0.72 | 0.75 | 0.57 | 100.0 | 1.0 | 6.0 |
sec | 2002_07 | dssp | 1lj2:B | 83.6 | 90 | 91 | 50 | 100 | 58 | 47 | 91.1 | 100 | 66 | 54 | 0.0 | 0.35 | 0.35 | 0.36 | 0.59 | 0.69 | 0.43 | 0.0 | 0.00 | 2.0 |
sec | 2002_07 | dssp | 1ljo:A | 70.7 | 60 | 50 | 73 | 86 | 69 | 59 | 80.1 | 70 | 83 | 77 | 5.3 | 0.26 | 0.27 | 0.26 | 0.47 | 0.58 | 0.46 | 100.0 | 2.0 | 8.0 |
sec | 2002_07 | dssp | 1lqr:A | 54.3 | 0 | 0 | 40 | 33 | 56 | 89 | 47.9 | 100 | 20 | 51 | 2.8 | 0.04 | 0.06 | 0.03 | 1.0 | 0.24 | 0.11 | 100.0 | 28.0 | 2.0 |
sec | 2002_07 | dssp | 1lvf:A | 85.8 | 84 | 98 | 0 | 0 | 93 | 51 | 91.6 | 95 | 100 | 69 | 0.0 | 0.37 | 0.43 | 0.31 | 0.62 | 1.0 | 0.62 | 100.0 | 12.0 | 0.00 |
sec | 2002_07 | dssp | 1ly1:A | 83.6 | 82 | 91 | 90 | 85 | 82 | 72 | 88.1 | 91 | 100 | 78 | 0.0 | 0.52 | 0.53 | 0.51 | 0.74 | 0.85 | 0.64 | 100.0 | 5.0 | 0.00 |
sec | 2002_07 | dssp | 1m4v:A | 45.1 | 57 | 100 | 9 | 66 | 92 | 36 | 33.5 | 71 | 15 | 41 | 0.0 | 0.28 | 0.21 | 0.37 | 0.72 | 0.09 | 0.17 | 100.0 | 7.0 | 42.0 |
sec | 2002_07 | dssp | THIS_month:psum | 76.4 | 63 | 68 | 54 | 65 | 77 | 71 | 75.2 | 79.3 | 76.5 | 69.5 | 1.4 | 0.37 | 0.37 | 0.37 | 0.71 | 0.69 | 0.54 | 78.2 | 5.6 | 6.3 |
sec | 2002_07 | dssp | ALL_proteins:psum | 74.4 | 77 | 81 | 63 | 71 | 77 | 70 | 69.9 | 69.3 | 68.0 | 66.0 | 2.6 | 0.33 | 0.33 | 0.34 | 0.67 | 0.59 | 0.53 | 7997.5 | 6.8 | 5.6 |
sec | 2002_07 | dssp | ALL_proteins:sig | 9.7 | 32 | 32 | 31 | 35 | 13 | 12 | 13.8 | 28.0 | 26.1 | 14.7 | 4.3 | 0.24 | 0.27 | 0.22 | 0.22 | 0.25 | 0.15 | 7920.1 | 8.3 | 6.7 |
sec | 2002_07 | dssp | ALL_proteins:errsig | 0.24 | 0.80 | 0.81 | 0.79 | 0.88 | 0.34 | 0.30 | 0.34 | 0.70 | 0.65 | 0.37 | 0.11 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 198.1 | 0.20 | 0.16 |
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) ) |