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 2000_09 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_09 | 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 | 2000_09 | 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 | 2000_09 | 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 | 2000_09 | dssp | THIS_month:psum | 75.5 | 69 | 65 | 45 | 51 | 70 | 73 | 66.6 | 71.3 | 67.7 | 62.2 | 2.5 | 0.29 | 0.29 | 0.29 | 0.69 | 0.60 | 0.49 | 78.2 | 5.7 | 4.9 |
sec | 2000_09 | dssp | 1d1h:A | 68.6 | 66 | 40 | 37 | 50 | 79 | 79 | 68.9 | 50 | 40 | 80 | 2.8 | 0.13 | 0.14 | 0.14 | 0.45 | 0.29 | 0.33 | 100.0 | 5.0 | 5.0 |
sec | 2000_09 | dssp | 1d1n:A | 61.2 | 0 | 0 | 84 | 61 | 46 | 90 | 64.7 | 100 | 68 | 61 | 3.0 | 0.17 | 0.20 | 0.14 | 1.0 | 0.49 | 0.40 | 100.0 | 15.0 | 14.0 |
sec | 2000_09 | dssp | 1d2o:A | 67.4 | 0 | 0 | 67 | 80 | 73 | 53 | 68.2 | 0 | 73 | 64 | 0.5 | 0.11 | 0.11 | 0.12 | 1.0 | 0.40 | 0.36 | 100.0 | 3.0 | 9.0 |
sec | 2000_09 | dssp | 1deb:A | 92.6 | 95 | 95 | 0 | 0 | 66 | 66 | 72.1 | 71 | 100 | 83 | 0.0 | 0.35 | 0.35 | 0.35 | 0.62 | 1.0 | 0.62 | 100.0 | 0.00 | 0.00 |
sec | 2000_09 | dssp | 1dl0:A | 73.0 | 0 | 0 | 27 | 60 | 92 | 75 | 38.3 | 100 | 36 | 39 | 0.0 | 0.06 | 0.05 | 0.08 | 1.0 | 0.26 | 0.26 | 100.0 | 0.00 | 16.0 |
sec | 2000_09 | dssp | 1dlw:A | 86.2 | 90 | 89 | 0 | 0 | 76 | 85 | 89.2 | 89 | 100 | 88 | 1.7 | 0.40 | 0.43 | 0.38 | 0.70 | 1.0 | 0.72 | 100.0 | 0.00 | 2.0 |
sec | 2000_09 | dssp | 1dqc:A | 67.1 | 0 | 0 | 33 | 50 | 85 | 71 | 45.9 | 0 | 33 | 51 | 0.0 | 0.05 | 0.04 | 0.06 | 1.0 | 0.22 | 0.17 | 100.0 | 4.0 | 9.0 |
sec | 2000_09 | dssp | 1ekr:A | 75.5 | 86 | 74 | 61 | 77 | 77 | 75 | 69.6 | 86 | 70 | 57 | 8.3 | 0.39 | 0.39 | 0.40 | 0.68 | 0.57 | 0.64 | 100.0 | 5.0 | 6.0 |
sec | 2000_09 | dssp | 1eo6:A | 81.9 | 84 | 86 | 73 | 79 | 84 | 79 | 86.0 | 87 | 84 | 85 | 1.7 | 0.47 | 0.47 | 0.48 | 0.78 | 0.69 | 0.67 | 0.0 | 0.00 | 1.0 |
sec | 2000_09 | dssp | 1esm:A | 77.1 | 83 | 86 | 56 | 74 | 78 | 68 | 71.9 | 77 | 68 | 67 | 0.6 | 0.39 | 0.39 | 0.40 | 0.73 | 0.59 | 0.54 | 100.0 | 1.0 | 3.0 |
sec | 2000_09 | dssp | 1euj:A | 69.5 | 64 | 84 | 68 | 66 | 71 | 69 | 69.0 | 67 | 65 | 71 | 1.2 | 0.25 | 0.24 | 0.26 | 0.71 | 0.44 | 0.41 | 100.0 | 2.0 | 1.0 |
sec | 2000_09 | dssp | 1eyq:A | 82.1 | 92 | 93 | 70 | 85 | 80 | 67 | 77.1 | 94 | 61 | 74 | 0.0 | 0.55 | 0.55 | 0.56 | 0.89 | 0.69 | 0.60 | 100.0 | 0.00 | 5.0 |
sec | 2000_09 | dssp | 1ezj:A | 75.4 | 88 | 86 | 0 | 0 | 22 | 55 | 57.9 | 62 | 100 | 27 | 6.1 | 0.07 | 0.08 | 0.07 | 0.30 | 1.0 | 0.26 | 0.0 | 1.0 | 9.0 |
sec | 2000_09 | dssp | 1ezw:A | 78.7 | 74 | 93 | 72 | 76 | 86 | 68 | 67.7 | 78 | 68 | 54 | 0.5 | 0.42 | 0.42 | 0.43 | 0.71 | 0.70 | 0.59 | 100.0 | 9.0 | 0.00 |
sec | 2000_09 | dssp | 1f3v:A | 65.2 | 95 | 59 | 36 | 92 | 40 | 76 | 54.4 | 63 | 44 | 48 | 12.6 | 0.24 | 0.20 | 0.28 | 0.45 | 0.52 | 0.44 | 0.0 | 28.0 | 13.0 |
sec | 2000_09 | dssp | 1f5x:A | 79.3 | 90 | 81 | 0 | 0 | 53 | 72 | 70.1 | 77 | 100 | 54 | 0.0 | 0.19 | 0.18 | 0.21 | 0.49 | 1.0 | 0.49 | 100.0 | 8.0 | 0.00 |
sec | 2000_09 | dssp | 1few:A | 91.3 | 92 | 98 | 0 | 0 | 75 | 50 | 80.0 | 79 | 100 | 87 | 1.7 | 0.30 | 0.38 | 0.23 | 0.52 | 1.0 | 0.57 | 100.0 | 5.0 | 1.0 |
sec | 2000_09 | dssp | 1fjf:B | 79.9 | 85 | 82 | 66 | 69 | 77 | 79 | 75.6 | 88 | 62 | 66 | 1.7 | 0.38 | 0.39 | 0.39 | 0.69 | 0.64 | 0.62 | 100.0 | 1.0 | 0.00 |
sec | 2000_09 | dssp | 1fjf:C | 63.1 | 78 | 62 | 72 | 47 | 48 | 77 | 50.7 | 62 | 61 | 42 | 5.3 | 0.20 | 0.21 | 0.20 | 0.52 | 0.47 | 0.38 | 0.0 | 8.0 | 9.0 |
sec | 2000_09 | dssp | 1fjf:I | 74.8 | 82 | 75 | 66 | 58 | 72 | 81 | 56.7 | 89 | 66 | 45 | 2.3 | 0.34 | 0.35 | 0.34 | 0.68 | 0.54 | 0.54 | 100.0 | 3.0 | 2.0 |
sec | 2000_09 | dssp | 1fjf:J | 64.3 | 100 | 33 | 60 | 71 | 58 | 92 | 65.8 | 74 | 60 | 66 | 7.1 | 0.27 | 0.30 | 0.26 | 0.48 | 0.55 | 0.50 | 0.0 | 26.0 | 4.0 |
sec | 2000_09 | dssp | 1fjf:K | 89.1 | 90 | 93 | 93 | 83 | 85 | 90 | 78.4 | 90 | 100 | 65 | 0.0 | 0.64 | 0.65 | 0.65 | 0.88 | 0.83 | 0.78 | 100.0 | 0.00 | 3.0 |
sec | 2000_09 | dssp | 1fjf:N | 73.3 | 63 | 87 | 0 | 0 | 88 | 73 | 54.5 | 58 | 0 | 57 | 1.6 | 0.27 | 0.25 | 0.29 | 0.63 | -0.06 | 0.48 | 100.0 | 9.0 | 1.0 |
sec | 2000_09 | dssp | THIS_month:psum | 75.5 | 69 | 65 | 45 | 51 | 70 | 73 | 66.6 | 71.3 | 67.7 | 62.2 | 2.5 | 0.29 | 0.29 | 0.29 | 0.69 | 0.60 | 0.49 | 78.2 | 5.7 | 4.9 |
sec | 2000_09 | 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 | 2000_09 | 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 | 2000_09 | 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) ) |