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 2004_02 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 | 2004_02 | 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 | 2004_02 | 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 | 2004_02 | 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 | 2004_02 | dssp | THIS_month:psum | 72.2 | 66 | 73 | 20 | 20 | 65 | 81 | 67.1 | 68.0 | 93.5 | 63.9 | 10.1 | 0.38 | 0.39 | 0.36 | 0.57 | 0.88 | 0.59 | 88.8 | 14.3 | 12.9 |
sec | 2004_02 | dssp | 1nxh:A | 78.2 | 95 | 79 | 0 | 0 | 30 | 83 | 56.2 | 64 | 100 | 33 | 1.6 | 0.17 | 0.14 | 0.20 | 0.36 | 1.0 | 0.42 | 100.0 | 15.0 | 1.0 |
sec | 2004_02 | dssp | 1oj5:A | 78.0 | 85 | 96 | 70 | 78 | 78 | 65 | 73.0 | 85 | 77 | 57 | 0.0 | 0.49 | 0.49 | 0.49 | 0.86 | 0.62 | 0.54 | 100.0 | 3.0 | 3.0 |
sec | 2004_02 | dssp | 1pzq:A | 83.3 | 87 | 90 | 0 | 0 | 77 | 84 | 81.8 | 100 | 100 | 66 | 0.0 | 0.44 | 0.49 | 0.40 | 0.76 | 1.0 | 0.66 | 100.0 | 1.0 | 5.0 |
sec | 2004_02 | dssp | 1pzr:A | 90.0 | 92 | 100 | 0 | 0 | 83 | 83 | 85.0 | 100 | 100 | 64 | 0.0 | 0.69 | 0.78 | 0.60 | 0.89 | 1.0 | 0.76 | 100.0 | 4.0 | 5.0 |
sec | 2004_02 | dssp | 1qz8:A | 64.0 | 0 | 0 | 70 | 66 | 76 | 72 | 69.9 | 0 | 75 | 85 | 14.4 | 0.19 | 0.19 | 0.20 | -0.11 | 0.40 | 0.55 | 100.0 | 4.0 | 2.0 |
sec | 2004_02 | dssp | 1s0y:B | 78.2 | 72 | 100 | 75 | 85 | 92 | 56 | 76.9 | 76 | 87 | 66 | 1.8 | 0.49 | 0.49 | 0.49 | 0.76 | 0.72 | 0.60 | 100.0 | 12.0 | 3.0 |
sec | 2004_02 | dssp | 1s5l:I | 36.8 | 0 | 0 | 0 | 0 | 87 | 100 | 42.1 | 0 | 100 | 100 | 57.8 | 0.74 | 0.73 | 0.76 | 1.0 | 1.0 | 0.89 | 100.0 | 57.0 | 63.0 |
sec | 2004_02 | dssp | 1s5l:J | 36.8 | 28 | 100 | 0 | 0 | 53 | 70 | 30.8 | 21 | 100 | 65 | 39.4 | 0.19 | 0.23 | 0.15 | 0.34 | 1.0 | 0.45 | 100.0 | 47.0 | 55.0 |
sec | 2004_02 | dssp | 1s5l:L | 81.1 | 86 | 83 | 0 | 0 | 71 | 90 | 73.0 | 100 | 100 | 50 | 5.4 | 0.38 | 0.42 | 0.35 | 0.59 | 1.0 | 0.71 | 100.0 | 2.0 | 5.0 |
sec | 2004_02 | dssp | 1s5l:M | 80.0 | 83 | 90 | 0 | 0 | 66 | 80 | 43.7 | 40 | 100 | 83 | 10.0 | 0.32 | 0.39 | 0.26 | 0.45 | 1.0 | 0.67 | 100.0 | 6.0 | 10.0 |
sec | 2004_02 | dssp | 1s5l:T | 96.8 | 100 | 95 | 0 | 0 | 91 | 100 | 100.0 | 100 | 100 | 100 | 0.0 | 0.81 | 0.81 | 0.83 | 0.93 | 1.0 | 0.93 | 100.0 | 3.0 | 0.00 |
sec | 2004_02 | dssp | 1s5l:X | 77.5 | 100 | 76 | 0 | 0 | 18 | 100 | 77.5 | 100 | 100 | 18 | 0.0 | 0.22 | 0.12 | 0.34 | 0.37 | 1.0 | 0.37 | 100.0 | 22.0 | 0.00 |
sec | 2004_02 | dssp | 1s5l:Z | 77.6 | 79 | 100 | 0 | 0 | 66 | 85 | 97.0 | 100 | 100 | 80 | 15.5 | 0.46 | 0.61 | 0.31 | 0.61 | 1.0 | 0.71 | 100.0 | 17.0 | 20.0 |
sec | 2004_02 | dssp | 1s68:A | 72.1 | 66 | 81 | 63 | 81 | 82 | 64 | 68.1 | 63 | 71 | 69 | 0.8 | 0.33 | 0.32 | 0.35 | 0.64 | 0.62 | 0.47 | 100.0 | 5.0 | 6.0 |
sec | 2004_02 | dssp | 1s6c:B | 71.4 | 100 | 70 | 0 | 0 | 14 | 100 | 41.0 | 54 | 100 | 14 | 0.0 | 0.18 | 0.09 | 0.28 | 0.31 | 1.0 | 0.31 | 100.0 | 28.0 | 0.00 |
sec | 2004_02 | dssp | 1s7b:A | 63.2 | 73 | 73 | 0 | 0 | 39 | 65 | 63.1 | 68 | 100 | 47 | 11.3 | 0.09 | 0.11 | 0.08 | 0.16 | 1.0 | 0.35 | 0.0 | 0.00 | 12.0 |
sec | 2004_02 | dssp | 1ufi:A | 62.5 | 51 | 94 | 0 | 0 | 92 | 70 | 65.3 | 54 | 100 | 94 | 25.0 | 0.37 | 0.49 | 0.27 | 0.39 | 1.0 | 0.72 | 100.0 | 33.0 | 25.0 |
sec | 2004_02 | dssp | 1ujx:A | 73.1 | 0 | 0 | 86 | 53 | 67 | 91 | 63.5 | 100 | 74 | 60 | 0.0 | 0.20 | 0.21 | 0.19 | 1.0 | 0.49 | 0.49 | 0.0 | 0.00 | 18.0 |
sec | 2004_02 | dssp | THIS_month:psum | 72.2 | 66 | 73 | 20 | 20 | 65 | 81 | 67.1 | 68.0 | 93.5 | 63.9 | 10.1 | 0.38 | 0.39 | 0.36 | 0.57 | 0.88 | 0.59 | 88.8 | 14.3 | 12.9 |
sec | 2004_02 | 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 | 2004_02 | 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 | 2004_02 | 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) ) |