METHOD about: | ../../../doc/explain_methods.html#PX_about_phd |
METHOD url: | PHD |
TYPE : | sec |
NPROT : | 1599 |
NWEEKS : | 109 |
NOTE 1 : | here ALL results obtained for PHD in month 2001_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 | 2001_02 | dssp | ALL_proteins:psum | 70.9 | 74 | 76 | 60 | 63 | 72 | 69 | 66.9 | 66.2 | 65.3 | 63.5 | 4.2 | 0.28 | 0.28 | 0.28 | 0.61 | 0.52 | 0.48 | 7542.2 | 7.8 | 6.1 |
sec | 2001_02 | dssp | ALL_proteins:sig | 10.8 | 31 | 31 | 30 | 32 | 14 | 12 | 14.2 | 27.8 | 26.4 | 14.8 | 5.1 | 0.24 | 0.27 | 0.22 | 0.25 | 0.26 | 0.15 | 7469.2 | 8.9 | 6.8 |
sec | 2001_02 | dssp | ALL_proteins:errsig | 0.27 | 0.79 | 0.79 | 0.76 | 0.82 | 0.35 | 0.31 | 0.35 | 0.69 | 0.66 | 0.37 | 0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 186.7 | 0.22 | 0.17 |
sec | 2001_02 | dssp | THIS_month:psum | 69.6 | 69 | 72 | 46 | 49 | 70 | 68 | 67.3 | 73.8 | 58.1 | 64.2 | 4.9 | 0.26 | 0.27 | 0.25 | 0.55 | 0.50 | 0.46 | 70.3 | 7.4 | 6.1 |
sec | 2001_02 | dssp | 1cwy:A | 75.2 | 84 | 83 | 35 | 51 | 77 | 71 | 70.3 | 81 | 38 | 68 | 2.6 | 0.31 | 0.31 | 0.33 | 0.70 | 0.35 | 0.54 | 100.0 | 0.00 | 4.0 |
sec | 2001_02 | dssp | 1dc1:A | 70.5 | 84 | 81 | 50 | 81 | 52 | 45 | 60.6 | 62 | 64 | 49 | 0.9 | 0.29 | 0.28 | 0.30 | 0.57 | 0.58 | 0.29 | 100.0 | 2.0 | 6.0 |
sec | 2001_02 | dssp | 1eg7:A | 73.4 | 77 | 74 | 55 | 77 | 77 | 71 | 66.6 | 75 | 57 | 63 | 2.3 | 0.30 | 0.29 | 0.31 | 0.62 | 0.59 | 0.51 | 100.0 | 1.0 | 5.0 |
sec | 2001_02 | dssp | 1egu:A | 64.5 | 71 | 68 | 39 | 76 | 75 | 58 | 60.0 | 71 | 44 | 60 | 5.4 | 0.20 | 0.19 | 0.21 | 0.53 | 0.45 | 0.40 | 0.0 | 1.0 | 12.0 |
sec | 2001_02 | dssp | 1eha:A | 67.3 | 65 | 75 | 66 | 39 | 68 | 77 | 55.1 | 68 | 49 | 52 | 2.8 | 0.23 | 0.24 | 0.22 | 0.61 | 0.39 | 0.40 | 100.0 | 3.0 | 10.0 |
sec | 2001_02 | dssp | 1ehk:A | 68.1 | 73 | 86 | 0 | 0 | 55 | 55 | 61.9 | 65 | 0 | 54 | 9.4 | 0.13 | 0.15 | 0.11 | 0.38 | -0.04 | 0.40 | 0.0 | 11.0 | 10.0 |
sec | 2001_02 | dssp | 1ehk:C | 72.7 | 66 | 100 | 0 | 0 | 100 | 75 | 100.0 | 100 | 100 | 100 | 21.2 | 0.52 | 0.71 | 0.34 | 0.51 | 1.0 | 0.83 | 100.0 | 27.0 | 21.0 |
sec | 2001_02 | dssp | 1evy:A | 73.4 | 77 | 87 | 79 | 56 | 65 | 66 | 74.3 | 82 | 79 | 62 | 1.7 | 0.34 | 0.35 | 0.33 | 0.67 | 0.60 | 0.46 | 100.0 | 5.0 | 5.0 |
sec | 2001_02 | dssp | 1eyr:A | 78.2 | 83 | 81 | 64 | 81 | 81 | 74 | 73.4 | 82 | 75 | 66 | 1.7 | 0.40 | 0.40 | 0.41 | 0.73 | 0.65 | 0.59 | 0.0 | 0.00 | 4.0 |
sec | 2001_02 | dssp | 1f32:A | 63.2 | 68 | 63 | 51 | 75 | 67 | 56 | 54.0 | 60 | 43 | 52 | 10.2 | 0.23 | 0.23 | 0.24 | 0.43 | 0.50 | 0.42 | 0.0 | 3.0 | 9.0 |
sec | 2001_02 | dssp | 1fgu:A | 75.2 | 58 | 80 | 77 | 80 | 79 | 70 | 81.4 | 69 | 81 | 86 | 1.2 | 0.34 | 0.33 | 0.35 | 0.63 | 0.65 | 0.53 | 100.0 | 4.0 | 1.0 |
sec | 2001_02 | dssp | 1fiu:A | 67.5 | 74 | 72 | 51 | 47 | 65 | 68 | 65.5 | 72 | 49 | 63 | 5.5 | 0.18 | 0.19 | 0.18 | 0.50 | 0.41 | 0.44 | 100.0 | 0.00 | 1.0 |
sec | 2001_02 | dssp | 1fkm:A | 71.1 | 71 | 90 | 50 | 4 | 70 | 52 | 62.3 | 65 | 16 | 55 | 4.0 | 0.16 | 0.20 | 0.14 | 0.46 | 0.13 | 0.43 | 0.0 | 15.0 | 6.0 |
sec | 2001_02 | dssp | 1fqj:C | 71.1 | 60 | 81 | 0 | 0 | 78 | 78 | 71.8 | 55 | 100 | 87 | 2.6 | 0.20 | 0.23 | 0.17 | 0.55 | 1.0 | 0.44 | 100.0 | 10.0 | 10.0 |
sec | 2001_02 | dssp | 1fx2:A | 74.5 | 61 | 87 | 79 | 80 | 83 | 65 | 74.7 | 69 | 77 | 77 | 1.2 | 0.38 | 0.37 | 0.39 | 0.61 | 0.74 | 0.53 | 0.0 | 11.0 | 0.00 |
sec | 2001_02 | dssp | 1g47:A | 45.7 | 70 | 19 | 7 | 33 | 52 | 77 | 35.5 | 63 | 10 | 36 | 12.8 | 0.03 | 0.04 | 0.04 | 0.15 | 0.07 | 0.21 | 0.0 | 37.0 | 15.0 |
sec | 2001_02 | dssp | 1g8q:A | 81.1 | 83 | 87 | 0 | 0 | 77 | 77 | 87.8 | 84 | 100 | 93 | 3.3 | 0.32 | 0.35 | 0.29 | 0.59 | 1.0 | 0.65 | 100.0 | 3.0 | 3.0 |
sec | 2001_02 | dssp | 1g8y:A | 75.6 | 83 | 78 | 67 | 72 | 71 | 73 | 80.8 | 97 | 72 | 70 | 1.6 | 0.35 | 0.35 | 0.36 | 0.67 | 0.64 | 0.53 | 100.0 | 2.0 | 1.0 |
sec | 2001_02 | dssp | 1g9r:A | 68.2 | 73 | 69 | 71 | 62 | 60 | 70 | 73.4 | 70 | 84 | 71 | 6.9 | 0.23 | 0.24 | 0.24 | 0.49 | 0.58 | 0.46 | 0.0 | 2.0 | 2.0 |
sec | 2001_02 | dssp | 1gcu:A | 59.9 | 73 | 64 | 45 | 58 | 54 | 54 | 56.6 | 67 | 53 | 46 | 11.6 | 0.14 | 0.14 | 0.15 | 0.43 | 0.36 | 0.33 | 100.0 | 6.0 | 5.0 |
sec | 2001_02 | dssp | 1h8r:A | 69.2 | 68 | 67 | 75 | 58 | 67 | 76 | 64.6 | 68 | 71 | 60 | 3.2 | 0.25 | 0.26 | 0.25 | 0.53 | 0.57 | 0.45 | 100.0 | 0.00 | 5.0 |
sec | 2001_02 | dssp | 1how:A | 66.3 | 61 | 78 | 54 | 73 | 77 | 57 | 62.5 | 72 | 64 | 54 | 0.9 | 0.25 | 0.24 | 0.26 | 0.53 | 0.55 | 0.37 | 100.0 | 8.0 | 5.0 |
sec | 2001_02 | dssp | 1hqc:A | 78.0 | 98 | 74 | 61 | 68 | 63 | 86 | 77.4 | 97 | 66 | 64 | 0.6 | 0.43 | 0.42 | 0.44 | 0.73 | 0.60 | 0.58 | 100.0 | 13.0 | 1.0 |
sec | 2001_02 | dssp | 1hqm:E | 50.0 | 62 | 41 | 0 | 0 | 44 | 86 | 55.7 | 49 | 0 | 61 | 12.2 | 0.14 | 0.17 | 0.13 | 0.09 | -0.05 | 0.35 | 100.0 | 18.0 | 11.0 |
sec | 2001_02 | dssp | 1hqo:A | 70.9 | 63 | 94 | 68 | 38 | 84 | 61 | 79.2 | 80 | 76 | 77 | 6.1 | 0.28 | 0.30 | 0.26 | 0.58 | 0.45 | 0.54 | 100.0 | 18.0 | 6.0 |
sec | 2001_02 | dssp | 1i1i:P | 78.3 | 82 | 85 | 53 | 68 | 75 | 69 | 70.7 | 72 | 52 | 70 | 1.5 | 0.31 | 0.31 | 0.32 | 0.62 | 0.57 | 0.56 | 100.0 | 1.0 | 1.0 |
sec | 2001_02 | dssp | 1i25:A | 70.3 | 0 | 0 | 60 | 46 | 74 | 83 | 42.0 | 100 | 50 | 39 | 0.0 | 0.07 | 0.08 | 0.07 | 1.0 | 0.31 | 0.31 | 100.0 | 0.00 | 8.0 |
sec | 2001_02 | dssp | THIS_month:psum | 69.6 | 69 | 72 | 46 | 49 | 70 | 68 | 67.3 | 73.8 | 58.1 | 64.2 | 4.9 | 0.26 | 0.27 | 0.25 | 0.55 | 0.50 | 0.46 | 70.3 | 7.4 | 6.1 |
sec | 2001_02 | dssp | ALL_proteins:psum | 70.9 | 74 | 76 | 60 | 63 | 72 | 69 | 66.9 | 66.2 | 65.3 | 63.5 | 4.2 | 0.28 | 0.28 | 0.28 | 0.61 | 0.52 | 0.48 | 7542.2 | 7.8 | 6.1 |
sec | 2001_02 | dssp | ALL_proteins:sig | 10.8 | 31 | 31 | 30 | 32 | 14 | 12 | 14.2 | 27.8 | 26.4 | 14.8 | 5.1 | 0.24 | 0.27 | 0.22 | 0.25 | 0.26 | 0.15 | 7469.2 | 8.9 | 6.8 |
sec | 2001_02 | dssp | ALL_proteins:errsig | 0.27 | 0.79 | 0.79 | 0.76 | 0.82 | 0.35 | 0.31 | 0.35 | 0.69 | 0.66 | 0.37 | 0.13 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 0.00 | 186.7 | 0.22 | 0.17 |
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) ) |