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 2002_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 | 2002_04 | 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 | 2002_04 | 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 | 2002_04 | 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 | 2002_04 | dssp | THIS_month:psum | 73.7 | 67 | 67 | 39 | 51 | 74 | 71 | 68.5 | 67.9 | 70 | 64.2 | 2.0 | 0.32 | 0.32 | 0.33 | 0.61 | 0.63 | 0.50 | 86.3 | 8.5 | 6.6 |
sec | 2002_04 | dssp | 1ich:A | 81.6 | 82 | 91 | 0 | 0 | 78 | 72 | 83.6 | 85 | 100 | 77 | 4.5 | 0.32 | 0.37 | 0.27 | 0.57 | 1.0 | 0.65 | 100.0 | 6.0 | 4.0 |
sec | 2002_04 | dssp | 1icz:A | 45.4 | 77 | 29 | 6 | 3 | 40 | 79 | 34.1 | 48 | 4 | 33 | 2.4 | 0.05 | 0.06 | 0.04 | 0.25 | -0.03 | 0.09 | 100.0 | 31.0 | 5.0 |
sec | 2002_04 | dssp | 1jki:A | 74.7 | 73 | 81 | 54 | 89 | 89 | 66 | 71.8 | 82 | 61 | 70 | 3.2 | 0.35 | 0.34 | 0.37 | 0.66 | 0.62 | 0.58 | 0.0 | 3.0 | 10.0 |
sec | 2002_04 | dssp | 1jww:A | 86.2 | 95 | 95 | 80 | 77 | 83 | 85 | 90.7 | 100 | 89 | 85 | 0.0 | 0.61 | 0.62 | 0.61 | 0.93 | 0.71 | 0.72 | 100.0 | 0.00 | 1.0 |
sec | 2002_04 | dssp | 1jyh:A | 81.9 | 75 | 87 | 82 | 92 | 85 | 71 | 85.4 | 80 | 95 | 77 | 0.0 | 0.51 | 0.51 | 0.52 | 0.75 | 0.79 | 0.63 | 100.0 | 3.0 | 4.0 |
sec | 2002_04 | dssp | 1k1v:A | 87.8 | 89 | 92 | 0 | 0 | 84 | 78 | 82.5 | 84 | 100 | 78 | 0.0 | 0.43 | 0.44 | 0.42 | 0.72 | 1.0 | 0.72 | 100.0 | 2.0 | 0.00 |
sec | 2002_04 | dssp | 1k2e:A | 69.1 | 81 | 100 | 61 | 67 | 66 | 53 | 62.2 | 69 | 60 | 53 | 0.0 | 0.43 | 0.43 | 0.44 | 0.87 | 0.44 | 0.35 | 100.0 | 5.0 | 3.0 |
sec | 2002_04 | dssp | 1k3b:A | 80.7 | 0 | 0 | 80 | 91 | 88 | 75 | 78.2 | 0 | 89 | 71 | 2.5 | 0.37 | 0.38 | 0.38 | -0.03 | 0.70 | 0.66 | 100.0 | 0.00 | 6.0 |
sec | 2002_04 | dssp | 1k3k:A | 80.1 | 94 | 78 | 0 | 0 | 56 | 86 | 78.6 | 78 | 100 | 79 | 0.0 | 0.27 | 0.25 | 0.30 | 0.57 | 1.0 | 0.57 | 100.0 | 13.0 | 0.00 |
sec | 2002_04 | dssp | 1k81:A | 63.9 | 0 | 0 | 31 | 100 | 100 | 62 | 54.2 | 100 | 36 | 73 | 8.3 | 0.27 | 0.28 | 0.27 | 1.0 | 0.42 | 0.54 | 100.0 | 8.0 | 36.0 |
sec | 2002_04 | dssp | 1k8b:A | 71.2 | 90 | 86 | 38 | 100 | 84 | 47 | 66.7 | 100 | 44 | 43 | 1.9 | 0.44 | 0.43 | 0.47 | 0.80 | 0.54 | 0.46 | 100.0 | 1.0 | 21.0 |
sec | 2002_04 | dssp | 1ksk:A | 77.8 | 88 | 77 | 78 | 69 | 72 | 83 | 80.3 | 91 | 81 | 75 | 1.2 | 0.41 | 0.42 | 0.41 | 0.77 | 0.63 | 0.58 | 100.0 | 2.0 | 3.0 |
sec | 2002_04 | dssp | 1ku3:A | 78.7 | 94 | 75 | 0 | 0 | 56 | 87 | 81.6 | 93 | 100 | 64 | 0.0 | 0.26 | 0.25 | 0.29 | 0.56 | 1.0 | 0.56 | 100.0 | 14.0 | 0.00 |
sec | 2002_04 | dssp | 1kv8:B | 84.2 | 81 | 93 | 88 | 79 | 85 | 76 | 86.4 | 84 | 95 | 83 | 2.7 | 0.51 | 0.53 | 0.51 | 0.77 | 0.79 | 0.71 | 0.0 | 6.0 | 2.0 |
sec | 2002_04 | dssp | 1kxl:A | 60.4 | 91 | 43 | 40 | 45 | 53 | 95 | 40.4 | 59 | 26 | 38 | 11.7 | 0.21 | 0.22 | 0.22 | 0.45 | 0.30 | 0.53 | 100.0 | 26.0 | 2.0 |
sec | 2002_04 | dssp | 1ky9:B | 64.7 | 60 | 85 | 38 | 100 | 95 | 52 | 72.5 | 81 | 57 | 83 | 0.0 | 0.35 | 0.31 | 0.40 | 0.66 | 0.51 | 0.43 | 100.0 | 5.0 | 25.0 |
sec | 2002_04 | dssp | 1l0o:A | 70.9 | 59 | 84 | 82 | 68 | 75 | 64 | 73.5 | 69 | 82 | 72 | 4.2 | 0.31 | 0.31 | 0.31 | 0.57 | 0.66 | 0.49 | 0.0 | 11.0 | 4.0 |
sec | 2002_04 | dssp | 1l0o:C | 86.0 | 88 | 100 | 0 | 0 | 85 | 66 | 86.8 | 100 | 0 | 63 | 0.0 | 0.56 | 0.61 | 0.51 | 0.81 | -0.02 | 0.66 | 100.0 | 8.0 | 1.0 |
sec | 2002_04 | dssp | 1l3y:A | 73.2 | 0 | 0 | 37 | 60 | 93 | 75 | 59.2 | 0 | 50 | 66 | 0.0 | 0.12 | 0.08 | 0.17 | 1.0 | 0.38 | 0.25 | 100.0 | 9.0 | 7.0 |
sec | 2002_04 | dssp | 1l7j:A | 71.6 | 19 | 71 | 65 | 82 | 85 | 65 | 61.5 | 19 | 71 | 59 | 0.0 | 0.24 | 0.22 | 0.27 | 0.34 | 0.56 | 0.45 | 100.0 | 5.0 | 9.0 |
sec | 2002_04 | dssp | 1l8c:B | 62.7 | 42 | 53 | 0 | 0 | 75 | 70 | 54.0 | 42 | 100 | 59 | 1.9 | 0.03 | 0.04 | 0.03 | 0.21 | 1.0 | 0.22 | 100.0 | 7.0 | 3.0 |
sec | 2002_04 | dssp | 1l8m:A | 69.3 | 96 | 71 | 0 | 0 | 11 | 61 | 24.7 | 30 | 100 | 12 | 0.0 | 0.07 | 0.05 | 0.10 | 0.23 | 1.0 | 0.15 | 100.0 | 24.0 | 1.0 |
sec | 2002_04 | dssp | THIS_month:psum | 73.7 | 67 | 67 | 39 | 51 | 74 | 71 | 68.5 | 67.9 | 70 | 64.2 | 2.0 | 0.32 | 0.32 | 0.33 | 0.61 | 0.63 | 0.50 | 86.3 | 8.5 | 6.6 |
sec | 2002_04 | 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 | 2002_04 | 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 | 2002_04 | 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) ) |