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_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 | 2001_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 | 2001_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 | 2001_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 | 2001_04 | dssp | THIS_month:psum | 68.4 | 60 | 50 | 39 | 43 | 69 | 78 | 59.5 | 77 | 59.5 | 57.2 | 5.1 | 0.26 | 0.28 | 0.24 | 0.64 | 0.50 | 0.46 | 70 | 12.4 | 8.5 |
sec | 2001_04 | dssp | 1daq:A | 76.1 | 87 | 70 | 0 | 0 | 70 | 91 | 64.6 | 80 | 100 | 58 | 0.0 | 0.31 | 0.37 | 0.26 | 0.65 | 1.0 | 0.54 | 100.0 | 8.0 | 7.0 |
sec | 2001_04 | dssp | 1dp3:A | 74.5 | 90 | 79 | 0 | 0 | 56 | 82 | 63.9 | 78 | 100 | 51 | 0.0 | 0.30 | 0.33 | 0.27 | 0.63 | 1.0 | 0.49 | 100.0 | 7.0 | 7.0 |
sec | 2001_04 | dssp | 1e4u:A | 83.3 | 85 | 54 | 0 | 0 | 88 | 92 | 41.5 | 100 | 0 | 39 | 0.0 | 0.27 | 0.29 | 0.26 | 0.64 | -0.04 | 0.38 | 100.0 | 5.0 | 1.0 |
sec | 2001_04 | dssp | 1fjr:A | 45.2 | 50 | 14 | 29 | 51 | 58 | 66 | 45.8 | 40 | 29 | 60 | 21.2 | 0.05 | 0.06 | 0.05 | 0.11 | 0.09 | 0.32 | 0.0 | 23.0 | 18.0 |
sec | 2001_04 | dssp | 1fvz:A | 74.3 | 81 | 76 | 59 | 82 | 78 | 68 | 65.4 | 59 | 77 | 62 | 2.9 | 0.34 | 0.34 | 0.35 | 0.67 | 0.61 | 0.54 | 0.0 | 1.0 | 7.0 |
sec | 2001_04 | dssp | 1g5c:A | 68.6 | 56 | 84 | 93 | 60 | 70 | 63 | 65.2 | 64 | 76 | 62 | 2.3 | 0.32 | 0.33 | 0.32 | 0.54 | 0.69 | 0.41 | 100.0 | 13.0 | 9.0 |
sec | 2001_04 | dssp | 1i50:L | 52.2 | 0 | 0 | 20 | 16 | 56 | 100 | 47.6 | 100 | 5 | 50 | 8.6 | 0.16 | 0.24 | 0.09 | 1.0 | 0.07 | 0.34 | 100.0 | 36.0 | 2.0 |
sec | 2001_04 | dssp | 1i85:A | 75.5 | 0 | 0 | 91 | 74 | 64 | 93 | 74.0 | 100 | 93 | 62 | 0.9 | 0.33 | 0.39 | 0.28 | 1.0 | 0.68 | 0.57 | 100.0 | 9.0 | 9.0 |
sec | 2001_04 | dssp | 1iaz:A | 65.7 | 86 | 38 | 53 | 81 | 73 | 72 | 66.1 | 86 | 61 | 66 | 13.1 | 0.23 | 0.25 | 0.23 | 0.48 | 0.45 | 0.55 | 100.0 | 15.0 | 16.0 |
sec | 2001_04 | dssp | 1io1:A | 68.6 | 66 | 85 | 50 | 75 | 83 | 58 | 60.9 | 63 | 54 | 62 | 2.2 | 0.28 | 0.27 | 0.30 | 0.65 | 0.50 | 0.45 | 0.0 | 7.0 | 9.0 |
sec | 2001_04 | dssp | THIS_month:psum | 68.4 | 60 | 50 | 39 | 43 | 69 | 78 | 59.5 | 77 | 59.5 | 57.2 | 5.1 | 0.26 | 0.28 | 0.24 | 0.64 | 0.50 | 0.46 | 70 | 12.4 | 8.5 |
sec | 2001_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 | 2001_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 | 2001_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) ) |