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_05 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_05 | 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_05 | 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_05 | 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_05 | dssp | THIS_month:psum | 71.7 | 55 | 52 | 38 | 52 | 74 | 72 | 63.2 | 74.5 | 48.6 | 64.5 | 4.3 | 0.23 | 0.21 | 0.24 | 0.55 | 0.52 | 0.44 | 81.8 | 6.6 | 9.4 |
sec | 2001_05 | dssp | 1c8b:A | 68.8 | 82 | 61 | 55 | 64 | 65 | 76 | 65.6 | 78 | 60 | 61 | 3.4 | 0.24 | 0.24 | 0.24 | 0.56 | 0.51 | 0.45 | 100.0 | 9.0 | 2.0 |
sec | 2001_05 | dssp | 1ews:A | 75.0 | 0 | 0 | 61 | 72 | 84 | 76 | 68.6 | 100 | 57 | 75 | 0.0 | 0.17 | 0.17 | 0.18 | 1.0 | 0.47 | 0.47 | 100.0 | 0.00 | 6.0 |
sec | 2001_05 | dssp | 1ezv:G | 50.5 | 23 | 56 | 60 | 23 | 72 | 62 | 40.0 | 20 | 60 | 57 | 16.1 | 0.10 | 0.10 | 0.10 | 0.13 | 0.24 | 0.34 | 100.0 | 24.0 | 17.0 |
sec | 2001_05 | dssp | 1fwo:A | 91.4 | 0 | 0 | 25 | 100 | 100 | 91 | 67.4 | 100 | 25 | 72 | 0.0 | 0.34 | 0.18 | 0.50 | 1.0 | 0.47 | 0.47 | 100.0 | 0.00 | 8.0 |
sec | 2001_05 | dssp | 1g4y:B | 79.0 | 86 | 89 | 0 | 0 | 50 | 41 | 66.6 | 69 | 0 | 53 | 0.0 | 0.13 | 0.13 | 0.14 | 0.37 | 1.0 | 0.32 | 100.0 | 2.0 | 1.0 |
sec | 2001_05 | dssp | 1g5v:A | 78.6 | 100 | 42 | 70 | 86 | 84 | 81 | 78.4 | 100 | 77 | 76 | 5.3 | 0.38 | 0.41 | 0.36 | 0.62 | 0.61 | 0.67 | 100.0 | 7.0 | 8.0 |
sec | 2001_05 | dssp | 1i7w:B | 62.7 | 50 | 58 | 0 | 0 | 67 | 78 | 36.5 | 64 | 100 | 32 | 0.0 | 0.13 | 0.17 | 0.11 | 0.38 | 1.0 | 0.16 | 100.0 | 3.0 | 13.0 |
sec | 2001_05 | dssp | 1ib2:A | 75.5 | 82 | 85 | 0 | 0 | 58 | 71 | 68.1 | 71 | 0 | 63 | 7.4 | 0.19 | 0.21 | 0.18 | 0.43 | -0.03 | 0.53 | 0.0 | 1.0 | 6.0 |
sec | 2001_05 | dssp | 1ifq:A | 75.6 | 95 | 64 | 42 | 93 | 78 | 87 | 83.3 | 100 | 48 | 90 | 12.5 | 0.41 | 0.39 | 0.44 | 0.62 | 0.56 | 0.74 | 0.0 | 18.0 | 14.0 |
sec | 2001_05 | dssp | 1ihn:A | 66.4 | 46 | 76 | 80 | 63 | 68 | 65 | 74.2 | 68 | 75 | 76 | 3.5 | 0.25 | 0.25 | 0.26 | 0.50 | 0.56 | 0.39 | 100.0 | 9.0 | 7.0 |
sec | 2001_05 | dssp | 1ija:A | 66.2 | 50 | 44 | 30 | 80 | 89 | 65 | 47.5 | 50 | 33 | 55 | 0.0 | 0.17 | 0.14 | 0.20 | 0.43 | 0.36 | 0.27 | 100.0 | 0.00 | 22.0 |
sec | 2001_05 | dssp | THIS_month:psum | 71.7 | 55 | 52 | 38 | 52 | 74 | 72 | 63.2 | 74.5 | 48.6 | 64.5 | 4.3 | 0.23 | 0.21 | 0.24 | 0.55 | 0.52 | 0.44 | 81.8 | 6.6 | 9.4 |
sec | 2001_05 | 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_05 | 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_05 | 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) ) |