METHOD about: | ../../../doc/explain_methods.html#PX_about_phd |
METHOD url: | PHD |
TYPE : | sec |
NPROT : | 373 |
NWEEKS : | 78 |
NOTE 1 : | here ALL results obtained for PHD in month 2003_08 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_08 | dssp | ALL_proteins:psum | 71.4 | 75 | 77 | 61 | 64 | 73 | 69 | 67.6 | 67.9 | 70.7 | 64.0 | 4.0 | 0.30 | 0.30 | 0.30 | 0.63 | 0.53 | 0.49 | 7962.4 | 8.9 | 7.6 |
sec | 2003_08 | dssp | ALL_proteins:sig | 12.4 | 36 | 36 | 37 | 39 | 17 | 15 | 17.2 | 31.3 | 28.4 | 18.0 | 7.1 | 0.16 | 0.17 | 0.16 | 0.28 | 0.31 | 0.19 | 7893.5 | 9.6 | 9.8 |
sec | 2003_08 | dssp | ALL_proteins:errsig | 0.64 | 1 | 1 | 1 | 2 | 0.89 | 0.79 | 0.89 | 1.6 | 1.4 | 0.93 | 0.37 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.01 | 408.7 | 0.49 | 0.50 |
sec | 2003_08 | dssp | THIS_month:psum | 60.3 | 56 | 85 | 25 | 21 | 61 | 52 | 52.8 | 54.7 | 74 | 46.5 | 10.4 | 0.12 | 0.13 | 0.12 | 0.36 | 0.68 | 0.33 | 50 | 18.2 | 12.5 |
sec | 2003_08 | dssp | 1ouo:A | 59.0 | 45 | 91 | 38 | 48 | 84 | 50 | 47.5 | 51 | 37 | 47 | 3.3 | 0.18 | 0.17 | 0.20 | 0.49 | 0.33 | 0.33 | 100.0 | 22.0 | 3.0 |
sec | 2003_08 | dssp | 1pv6:A | 54.2 | 58 | 84 | 0 | 0 | 34 | 40 | 49.6 | 54 | 100 | 30 | 23.0 | 0.03 | 0.05 | 0.02 | 0.10 | 1.0 | 0.23 | 0.0 | 24.0 | 26.0 |
sec | 2003_08 | dssp | 1pw4:A | 64.9 | 67 | 82 | 0 | 0 | 58 | 61 | 61.9 | 63 | 100 | 58 | 10.3 | 0.11 | 0.14 | 0.09 | 0.34 | 1.0 | 0.41 | 0.0 | 12.0 | 13.0 |
sec | 2003_08 | dssp | 1q3k:A | 63.3 | 57 | 84 | 63 | 37 | 70 | 60 | 52.2 | 51 | 59 | 51 | 5.0 | 0.18 | 0.19 | 0.18 | 0.51 | 0.39 | 0.36 | 100.0 | 15.0 | 8.0 |
sec | 2003_08 | dssp | THIS_month:psum | 60.3 | 56 | 85 | 25 | 21 | 61 | 52 | 52.8 | 54.7 | 74 | 46.5 | 10.4 | 0.12 | 0.13 | 0.12 | 0.36 | 0.68 | 0.33 | 50 | 18.2 | 12.5 |
sec | 2003_08 | dssp | ALL_proteins:psum | 71.4 | 75 | 77 | 61 | 64 | 73 | 69 | 67.6 | 67.9 | 70.7 | 64.0 | 4.0 | 0.30 | 0.30 | 0.30 | 0.63 | 0.53 | 0.49 | 7962.4 | 8.9 | 7.6 |
sec | 2003_08 | dssp | ALL_proteins:sig | 12.4 | 36 | 36 | 37 | 39 | 17 | 15 | 17.2 | 31.3 | 28.4 | 18.0 | 7.1 | 0.16 | 0.17 | 0.16 | 0.28 | 0.31 | 0.19 | 7893.5 | 9.6 | 9.8 |
sec | 2003_08 | dssp | ALL_proteins:errsig | 0.64 | 1 | 1 | 1 | 2 | 0.89 | 0.79 | 0.89 | 1.6 | 1.4 | 0.93 | 0.37 | 0.00 | 0.00 | 0.00 | 0.01 | 0.01 | 0.01 | 408.7 | 0.49 | 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) ) |