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 2000_04 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 | 2000_04 | 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 | 2000_04 | 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 | 2000_04 | 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 | 2000_04 | dssp | THIS_month:psum | 72.0 | 85 | 74 | 39 | 44 | 58 | 73 | 67.1 | 74.6 | 71.6 | 61.2 | 2.1 | 0.29 | 0.29 | 0.29 | 0.58 | 0.69 | 0.46 | 66.6 | 11.3 | 4.1 |
sec | 2000_04 | dssp | 1b6t:A | 73.9 | 92 | 69 | 58 | 89 | 57 | 76 | 76.5 | 85 | 69 | 69 | 4.4 | 0.34 | 0.32 | 0.36 | 0.60 | 0.67 | 0.51 | 100.0 | 15.0 | 6.0 |
sec | 2000_04 | dssp | 1cjx:A | 71.9 | 85 | 72 | 57 | 78 | 73 | 67 | 72.9 | 83 | 64 | 73 | 4.5 | 0.31 | 0.32 | 0.32 | 0.69 | 0.54 | 0.51 | 0.0 | 5.0 | 8.0 |
sec | 2000_04 | dssp | 1d8j:A | 71.6 | 86 | 72 | 57 | 50 | 59 | 75 | 67.4 | 84 | 30 | 58 | 1.2 | 0.26 | 0.27 | 0.27 | 0.59 | 0.48 | 0.45 | 100.0 | 8.0 | 1.0 |
sec | 2000_04 | dssp | 1di0:A | 72.3 | 79 | 84 | 70 | 88 | 58 | 44 | 69.9 | 71 | 77 | 57 | 0.0 | 0.38 | 0.38 | 0.38 | 0.60 | 0.74 | 0.32 | 100.0 | 3.0 | 4.0 |
sec | 2000_04 | dssp | 1dt8:A | 63.6 | 100 | 57 | 0 | 0 | 29 | 100 | 43.3 | 45 | 100 | 41 | 0.0 | 0.21 | 0.16 | 0.27 | 0.40 | 1.0 | 0.40 | 100.0 | 36.0 | 0.00 |
sec | 2000_04 | dssp | 1ei7:A | 64.6 | 68 | 92 | 50 | 20 | 62 | 62 | 56.6 | 63 | 26 | 52 | 3.7 | 0.26 | 0.28 | 0.25 | 0.66 | 0.21 | 0.35 | 0.0 | 12.0 | 12.0 |
sec | 2000_04 | dssp | 1elw:A | 84.6 | 91 | 89 | 0 | 0 | 58 | 73 | 68.9 | 70 | 100 | 63 | 2.5 | 0.26 | 0.28 | 0.25 | 0.51 | 1.0 | 0.57 | 100.0 | 1.0 | 2.0 |
sec | 2000_04 | dssp | 1enw:A | 73.7 | 95 | 61 | 0 | 0 | 58 | 95 | 68.3 | 89 | 100 | 58 | 0.0 | 0.27 | 0.28 | 0.27 | 0.56 | 1.0 | 0.55 | 0.0 | 21.0 | 0.00 |
sec | 2000_04 | dssp | 1fbn:A | 72.6 | 76 | 71 | 67 | 79 | 74 | 69 | 80.5 | 82 | 79 | 80 | 2.6 | 0.31 | 0.32 | 0.32 | 0.64 | 0.61 | 0.49 | 100.0 | 1.0 | 4.0 |
sec | 2000_04 | dssp | THIS_month:psum | 72.0 | 85 | 74 | 39 | 44 | 58 | 73 | 67.1 | 74.6 | 71.6 | 61.2 | 2.1 | 0.29 | 0.29 | 0.29 | 0.58 | 0.69 | 0.46 | 66.6 | 11.3 | 4.1 |
sec | 2000_04 | 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 | 2000_04 | 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 | 2000_04 | 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) ) |