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 2001_01 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_01 | 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 | 2001_01 | 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 | 2001_01 | 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 | 2001_01 | dssp | THIS_month:psum | 75.8 | 67 | 71 | 43 | 47 | 73 | 66 | 70.0 | 72.2 | 71.4 | 63.7 | 1.9 | 0.31 | 0.32 | 0.30 | 0.64 | 0.64 | 0.46 | 82.6 | 5.8 | 4.1 |
sec | 2001_01 | dssp | 1dqe:A | 78.8 | 85 | 84 | 0 | 0 | 70 | 80 | 69.7 | 83 | 0 | 56 | 3.6 | 0.30 | 0.32 | 0.29 | 0.61 | -0.02 | 0.61 | 0.0 | 0.00 | 3.0 |
sec | 2001_01 | dssp | 1emx:A | 70.0 | 0 | 0 | 0 | 0 | 75 | 91 | 70.0 | 100 | 0 | 75 | 0.0 | 0.05 | 0.07 | 0.03 | 1.0 | -0.14 | -0.14 | 100.0 | 0.00 | 16.0 |
sec | 2001_01 | dssp | 1ep1:B | 68.6 | 84 | 58 | 56 | 79 | 71 | 68 | 68.8 | 79 | 60 | 72 | 4.2 | 0.27 | 0.27 | 0.27 | 0.61 | 0.53 | 0.45 | 100.0 | 8.0 | 10.0 |
sec | 2001_01 | dssp | 1es8:A | 64.9 | 76 | 81 | 58 | 87 | 50 | 30 | 51.4 | 47 | 75 | 28 | 0.0 | 0.35 | 0.36 | 0.36 | 0.61 | 0.61 | 0.16 | 100.0 | 2.0 | 10.0 |
sec | 2001_01 | dssp | 1f9a:A | 81.1 | 79 | 85 | 87 | 70 | 80 | 81 | 87.5 | 89 | 100 | 80 | 3.6 | 0.43 | 0.44 | 0.42 | 0.69 | 0.74 | 0.68 | 100.0 | 3.0 | 3.0 |
sec | 2001_01 | dssp | 1fc6:A | 79.0 | 76 | 88 | 74 | 82 | 83 | 72 | 74.9 | 84 | 72 | 70 | 0.0 | 0.45 | 0.45 | 0.46 | 0.76 | 0.70 | 0.58 | 100.0 | 3.0 | 2.0 |
sec | 2001_01 | dssp | 1fe6:A | 73.1 | 71 | 100 | 0 | 0 | 100 | 23 | 96.8 | 100 | 100 | 45 | 7.6 | 0.24 | 0.39 | 0.10 | 0.35 | 1.0 | 0.42 | 100.0 | 26.0 | 7.0 |
sec | 2001_01 | dssp | 1fh1:A | 64.7 | 90 | 66 | 0 | 0 | 16 | 50 | 63.6 | 93 | 100 | 8 | 0.0 | 0.01 | 0.01 | 0.02 | 0.11 | 1.0 | 0.11 | 100.0 | 23.0 | 0.00 |
sec | 2001_01 | dssp | 1fm0:D | 70.4 | 60 | 73 | 68 | 65 | 77 | 71 | 66.7 | 66 | 74 | 62 | 6.1 | 0.25 | 0.26 | 0.26 | 0.55 | 0.53 | 0.53 | 100.0 | 4.0 | 1.0 |
sec | 2001_01 | dssp | 1fm0:E | 82.1 | 100 | 88 | 78 | 78 | 76 | 81 | 92.3 | 100 | 100 | 82 | 0.0 | 0.55 | 0.56 | 0.55 | 0.92 | 0.66 | 0.63 | 100.0 | 2.0 | 0.00 |
sec | 2001_01 | dssp | 1foe:A | 79.6 | 85 | 84 | 80 | 86 | 68 | 68 | 72.0 | 71 | 75 | 72 | 0.0 | 0.43 | 0.43 | 0.43 | 0.67 | 0.80 | 0.53 | 100.0 | 0.00 | 0.00 |
sec | 2001_01 | dssp | 1fqt:A | 79.8 | 0 | 0 | 77 | 80 | 86 | 79 | 77.3 | 0 | 80 | 78 | 0.9 | 0.28 | 0.27 | 0.31 | 1.0 | 0.62 | 0.61 | 100.0 | 2.0 | 1.0 |
sec | 2001_01 | dssp | 1fy2:A | 79.4 | 87 | 85 | 71 | 64 | 76 | 81 | 74.4 | 88 | 68 | 66 | 0.6 | 0.43 | 0.44 | 0.43 | 0.79 | 0.60 | 0.60 | 100.0 | 0.00 | 1.0 |
sec | 2001_01 | dssp | 1fzp:D | 76.8 | 89 | 83 | 0 | 0 | 47 | 66 | 62.2 | 69 | 100 | 48 | 0.0 | 0.21 | 0.23 | 0.21 | 0.51 | 1.0 | 0.41 | 100.0 | 5.0 | 3.0 |
sec | 2001_01 | dssp | 1fzr:A | 51.9 | 17 | 53 | 60 | 56 | 72 | 49 | 46.6 | 25 | 59 | 54 | 5.4 | 0.10 | 0.10 | 0.12 | 0.16 | 0.42 | 0.19 | 0.0 | 20.0 | 1.0 |
sec | 2001_01 | dssp | 1g1i:A | 95.3 | 94 | 100 | 0 | 0 | 100 | 71 | 71.6 | 69 | 100 | 100 | 0.0 | 0.65 | 0.73 | 0.59 | 0.82 | 1.0 | 0.82 | 100.0 | 4.0 | 0.00 |
sec | 2001_01 | dssp | 1g2c:A | 90.0 | 93 | 95 | 0 | 0 | 50 | 40 | 63.0 | 64 | 100 | 33 | 0.0 | 0.15 | 0.17 | 0.15 | 0.39 | 1.0 | 0.39 | 100.0 | 2.0 | 0.00 |
sec | 2001_01 | dssp | 1g2c:B | 90.0 | 93 | 93 | 0 | 0 | 81 | 81 | 68.8 | 62 | 100 | 100 | 0.0 | 0.46 | 0.47 | 0.47 | 0.74 | 1.0 | 0.74 | 100.0 | 0.00 | 0.00 |
sec | 2001_01 | dssp | 1g4u:S | 79.7 | 85 | 90 | 76 | 66 | 73 | 73 | 76.9 | 86 | 70 | 70 | 0.8 | 0.44 | 0.45 | 0.44 | 0.78 | 0.65 | 0.58 | 100.0 | 2.0 | 2.0 |
sec | 2001_01 | dssp | 1g55:A | 70.5 | 58 | 85 | 57 | 100 | 90 | 57 | 58.9 | 65 | 68 | 46 | 0.0 | 0.38 | 0.36 | 0.42 | 0.58 | 0.71 | 0.48 | 0.0 | 11.0 | 10.0 |
sec | 2001_01 | dssp | 1g6o:A | 76.8 | 85 | 79 | 59 | 80 | 77 | 72 | 72.9 | 75 | 66 | 73 | 2.7 | 0.37 | 0.37 | 0.38 | 0.70 | 0.62 | 0.57 | 0.0 | 3.0 | 5.0 |
sec | 2001_01 | dssp | 1g73:C | 59.6 | 44 | 70 | 55 | 27 | 73 | 65 | 60.2 | 46 | 47 | 75 | 10.1 | 0.14 | 0.14 | 0.14 | 0.34 | 0.29 | 0.39 | 100.0 | 15.0 | 10.0 |
sec | 2001_01 | dssp | 1hx2:A | 83.3 | 0 | 0 | 33 | 66 | 95 | 85 | 65.2 | 100 | 29 | 74 | 0.0 | 0.15 | 0.12 | 0.18 | 1.0 | 0.38 | 0.38 | 100.0 | 0.00 | 10.0 |
sec | 2001_01 | dssp | THIS_month:psum | 75.8 | 67 | 71 | 43 | 47 | 73 | 66 | 70.0 | 72.2 | 71.4 | 63.7 | 1.9 | 0.31 | 0.32 | 0.30 | 0.64 | 0.64 | 0.46 | 82.6 | 5.8 | 4.1 |
sec | 2001_01 | 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 | 2001_01 | 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 | 2001_01 | 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) ) |