METHOD about: | ../../../doc/explain_methods.html#PX_about_phdpsi |
METHOD url: | PHDpsi |
TYPE : | sec |
NPROT : | 370 |
NWEEKS : | 78 |
NOTE 1 : | here ALL results obtained for PHDpsi 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 | 72.7 | 76 | 79 | 63 | 67 | 74 | 69 | 68.8 | 69.3 | 72.0 | 64.8 | 3.3 | 0.32 | 0.32 | 0.32 | 0.65 | 0.55 | 0.50 | 8135.1 | 8.5 | 7.3 |
sec | 2003_11 | dssp | ALL_proteins:sig | 11.9 | 36 | 36 | 38 | 40 | 17 | 15 | 17.1 | 31.1 | 28.2 | 17.8 | 6.3 | 0.17 | 0.17 | 0.17 | 0.26 | 0.30 | 0.19 | 8064.7 | 9.0 | 9.6 |
sec | 2003_11 | dssp | ALL_proteins:errsig | 0.62 | 1 | 1 | 1 | 2 | 0.90 | 0.78 | 0.89 | 1.6 | 1.4 | 0.92 | 0.33 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.01 | 419.2 | 0.47 | 0.50 |
sec | 2003_11 | dssp | THIS_month:psum | 74.4 | 73 | 67 | 32 | 39 | 67 | 71 | 73.6 | 81.3 | 75 | 66.2 | 2.5 | 0.31 | 0.30 | 0.32 | 0.61 | 0.71 | 0.52 | 90.4 | 8.6 | 5.2 |
sec | 2003_11 | dssp | 1kg1:A | 65.0 | 0 | 0 | 53 | 60 | 73 | 67 | 61.1 | 100 | 51 | 67 | 0.0 | 0.05 | 0.06 | 0.06 | 1.0 | 0.27 | 0.27 | 100.0 | 0.00 | 4.0 |
sec | 2003_11 | dssp | 1kom:A | 74.2 | 100 | 81 | 55 | 80 | 84 | 69 | 68.7 | 100 | 53 | 74 | 0.0 | 0.40 | 0.40 | 0.41 | 0.89 | 0.50 | 0.49 | 100.0 | 2.0 | 12.0 |
sec | 2003_11 | dssp | 1lmm:A | 75.0 | 0 | 0 | 55 | 62 | 80 | 86 | 84.6 | 100 | 50 | 94 | 0.0 | 0.17 | 0.21 | 0.15 | 1.0 | 0.47 | 0.33 | 100.0 | 7.0 | 2.0 |
sec | 2003_11 | dssp | 1mwq:A | 73.7 | 77 | 81 | 67 | 85 | 76 | 58 | 78.3 | 80 | 89 | 63 | 3.0 | 0.36 | 0.37 | 0.37 | 0.68 | 0.65 | 0.50 | 100.0 | 2.0 | 7.0 |
sec | 2003_11 | dssp | 1mww:A | 78.3 | 74 | 88 | 80 | 93 | 82 | 59 | 81.0 | 82 | 85 | 74 | 0.8 | 0.47 | 0.47 | 0.47 | 0.69 | 0.81 | 0.55 | 100.0 | 6.0 | 4.0 |
sec | 2003_11 | dssp | 1n6j:G | 69.2 | 100 | 60 | 0 | 0 | 42 | 100 | 68.5 | 90 | 100 | 50 | 0.0 | 0.28 | 0.25 | 0.32 | 0.50 | 1.0 | 0.50 | 100.0 | 30.0 | 0.00 |
sec | 2003_11 | dssp | 1oa8:A | 66.4 | 45 | 78 | 64 | 77 | 78 | 57 | 57.0 | 51 | 51 | 66 | 1.5 | 0.23 | 0.22 | 0.25 | 0.53 | 0.52 | 0.38 | 100.0 | 7.0 | 7.0 |
sec | 2003_11 | dssp | 1oh1:A | 63.3 | 50 | 10 | 54 | 77 | 71 | 84 | 64.4 | 66 | 55 | 70 | 13.7 | 0.20 | 0.22 | 0.18 | 0.13 | 0.47 | 0.55 | 100.0 | 20.0 | 11.0 |
sec | 2003_11 | dssp | 1oqj:A | 63.3 | 82 | 55 | 16 | 50 | 79 | 70 | 60.2 | 74 | 12 | 79 | 11.1 | 0.21 | 0.20 | 0.23 | 0.54 | 0.16 | 0.49 | 100.0 | 12.0 | 17.0 |
sec | 2003_11 | dssp | 1p68:A | 70.6 | 100 | 69 | 0 | 0 | 14 | 100 | 18.5 | 19 | 100 | 17 | 0.0 | 0.18 | 0.09 | 0.28 | 0.31 | 1.0 | 0.31 | 100.0 | 29.0 | 0.00 |
sec | 2003_11 | dssp | 1pi7:A | 89.5 | 100 | 94 | 0 | 0 | 0 | 0 | 89.5 | 100 | 100 | 0 | 0.0 | 0.52 | 0.40 | 0.65 | 0.68 | 1.0 | 1.0 | 100.0 | 5.0 | 5.0 |
sec | 2003_11 | dssp | 1px5:A | 79.6 | 90 | 84 | 67 | 68 | 69 | 76 | 81.6 | 92 | 80 | 67 | 1.5 | 0.40 | 0.41 | 0.41 | 0.75 | 0.62 | 0.58 | 100.0 | 3.0 | 0.00 |
sec | 2003_11 | dssp | 1q68:A | 84.2 | 100 | 62 | 0 | 0 | 78 | 100 | 87.8 | 93 | 100 | 85 | 0.0 | 0.47 | 0.52 | 0.44 | 0.70 | 1.0 | 0.70 | 100.0 | 15.0 | 0.00 |
sec | 2003_11 | dssp | 1r5r:A | 73.5 | 76 | 93 | 50 | 5 | 70 | 75 | 74.4 | 82 | 8 | 64 | 8.5 | 0.30 | 0.35 | 0.25 | 0.63 | 0.12 | 0.59 | 0.0 | 11.0 | 14.0 |
sec | 2003_11 | dssp | 1rif:A | 74.1 | 76 | 77 | 63 | 88 | 76 | 66 | 67.3 | 73 | 70 | 59 | 1.4 | 0.34 | 0.34 | 0.35 | 0.62 | 0.69 | 0.50 | 100.0 | 0.00 | 5.0 |
sec | 2003_11 | dssp | 1uf3:A | 77.2 | 79 | 88 | 62 | 88 | 87 | 66 | 73.5 | 86 | 71 | 66 | 0.8 | 0.43 | 0.42 | 0.45 | 0.77 | 0.65 | 0.58 | 100.0 | 3.0 | 9.0 |
sec | 2003_11 | dssp | 1ujl:A | 66.7 | 57 | 50 | 0 | 0 | 71 | 76 | 70.5 | 42 | 100 | 84 | 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 | 65.6 | 77 | 73 | 0 | 0 | 40 | 44 | 81.8 | 100 | 100 | 41 | 0.0 | 0.02 | 0.02 | 0.03 | 0.17 | 1.0 | 0.17 | 100.0 | 3.0 | 0.00 |
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 | 89.7 | 91 | 95 | 0 | 0 | 84 | 78 | 97.2 | 100 | 100 | 87 | 1.7 | 0.46 | 0.50 | 0.42 | 0.72 | 1.0 | 0.75 | 100.0 | 3.0 | 1.0 |
sec | 2003_11 | dssp | 1uqv:A | 67.1 | 59 | 85 | 0 | 0 | 77 | 70 | 81.3 | 79 | 100 | 84 | 9.4 | 0.18 | 0.22 | 0.15 | 0.45 | 1.0 | 0.52 | 0.0 | 17.0 | 12.0 |
sec | 2003_11 | dssp | THIS_month:psum | 74.4 | 73 | 67 | 32 | 39 | 67 | 71 | 73.6 | 81.3 | 75 | 66.2 | 2.5 | 0.31 | 0.30 | 0.32 | 0.61 | 0.71 | 0.52 | 90.4 | 8.6 | 5.2 |
sec | 2003_11 | dssp | ALL_proteins:psum | 72.7 | 76 | 79 | 63 | 67 | 74 | 69 | 68.8 | 69.3 | 72.0 | 64.8 | 3.3 | 0.32 | 0.32 | 0.32 | 0.65 | 0.55 | 0.50 | 8135.1 | 8.5 | 7.3 |
sec | 2003_11 | dssp | ALL_proteins:sig | 11.9 | 36 | 36 | 38 | 40 | 17 | 15 | 17.1 | 31.1 | 28.2 | 17.8 | 6.3 | 0.17 | 0.17 | 0.17 | 0.26 | 0.30 | 0.19 | 8064.7 | 9.0 | 9.6 |
sec | 2003_11 | dssp | ALL_proteins:errsig | 0.62 | 1 | 1 | 1 | 2 | 0.90 | 0.78 | 0.89 | 1.6 | 1.4 | 0.92 | 0.33 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.01 | 419.2 | 0.47 | 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) ) |