METHOD about: | ../../doc/explain_method2.html#PX_about_PHDpsi |
METHOD url: | PHDpsi |
TYPE : | sec |
NPROT : | 248 |
NWEEKS : | 36 |
NOTE 1 : | here ALL results obtained for phdpsi 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 | 74.6 | 71 | 50 | 73 | 72 | 54 | 72 | 70.1 | 73.5 | 68.7 | 65.2 | 2.8 | 0.29 | 0.29 | 0.30 | 0.64 | 0.62 | 0.52 | 7822.5 | 6.4 | 5.0 |
sec | 2000_04 | dssp | ALL_proteins:sig | 9.0 | 26 | 30 | 14 | 26 | 32 | 11 | 13.5 | 23.7 | 25.7 | 16.3 | 3.7 | 0.53 | 0.60 | 0.46 | 0.20 | 0.25 | 0.14 | 7760.1 | 8.3 | 6.0 |
sec | 2000_04 | dssp | ALL_proteins:errsig | 0.57 | 1 | 1 | 0.90 | 1 | 2 | 0.74 | 0.86 | 1.5 | 1.6 | 1.0 | 0.24 | 0.03 | 0.03 | 0.03 | 0.01 | 0.01 | 0.00 | 492.7 | 0.52 | 0.38 |
sec | 2000_04 | dssp | THIS_month:psum | 75.4 | 80 | 53 | 70 | 82 | 58 | 70 | 72.0 | 78.6 | 72.7 | 64.8 | 2.1 | 0.35 | 0.34 | 0.36 | 0.65 | 0.66 | 0.52 | 73.9 | 6.8 | 3.0 |
sec | 2000_04 | dssp | 1b6t:A | 73.9 | 91 | 58 | 59 | 72 | 77 | 75 | 74.8 | 86 | 72 | 61 | 4.4 | 0.32 | 0.31 | 0.34 | 0.62 | 0.61 | 0.51 | 100.0 | 12.0 | 4.0 |
sec | 2000_04 | dssp | 1bsj:A | 59.6 | 55 | 64 | 59 | 76 | 50 | 56 | 55.3 | 51 | 65 | 52 | 8.4 | 0.16 | 0.17 | 0.17 | 0.50 | 0.37 | 0.32 | 0.0 | 9.0 | 7.0 |
sec | 2000_04 | dssp | 1bsk:A | 56.0 | 55 | 56 | 55 | 76 | 50 | 47 | 54.6 | 51 | 60 | 52 | 8.4 | 0.15 | 0.15 | 0.15 | 0.50 | 0.30 | 0.23 | 0.0 | 9.0 | 4.0 |
sec | 2000_04 | dssp | 1cjx:A | 71.3 | 88 | 55 | 72 | 72 | 81 | 64 | 69.2 | 82 | 66 | 62 | 3.1 | 0.33 | 0.34 | 0.34 | 0.71 | 0.55 | 0.47 | 0.0 | 6.0 | 10.0 |
sec | 2000_04 | dssp | 1d6s:A | 77.6 | 74 | 80 | 79 | 84 | 82 | 70 | 73.5 | 78 | 88 | 64 | 0.0 | 0.42 | 0.42 | 0.42 | 0.66 | 0.78 | 0.55 | 100.0 | 5.0 | 0.00 |
sec | 2000_04 | dssp | 1d8j:A | 83.8 | 89 | 71 | 80 | 84 | 83 | 82 | 84.3 | 92 | 50 | 85 | 0.0 | 0.47 | 0.47 | 0.48 | 0.75 | 0.75 | 0.67 | 100.0 | 2.0 | 1.0 |
sec | 2000_04 | dssp | 1d8k:A | 77.5 | 80 | 55 | 79 | 87 | 83 | 65 | 74.2 | 83 | 46 | 73 | 0.0 | 0.38 | 0.37 | 0.39 | 0.67 | 0.64 | 0.54 | 100.0 | 3.0 | 3.0 |
sec | 2000_04 | dssp | 1di0:A | 74.3 | 80 | 77 | 58 | 83 | 88 | 48 | 74.7 | 74 | 93 | 58 | 0.6 | 0.38 | 0.39 | 0.39 | 0.60 | 0.78 | 0.36 | 100.0 | 2.0 | 2.0 |
sec | 2000_04 | dssp | 1dkf:A | 77.4 | 85 | 50 | 62 | 85 | 42 | 63 | 68.8 | 74 | 40 | 59 | 0.0 | 0.26 | 0.26 | 0.26 | 0.56 | 0.44 | 0.46 | 100.0 | 0.00 | 0.00 |
sec | 2000_04 | dssp | 1dt8:A | 60.6 | 100 | 0 | 23 | 55 | 0 | 100 | 55.5 | 83 | 100 | 29 | 0.0 | 0.18 | 0.13 | 0.24 | 0.36 | 1.0 | 0.36 | 100.0 | 39.0 | 0.00 |
sec | 2000_04 | dssp | 1ei7:A | 62.0 | 61 | 42 | 67 | 92 | 15 | 65 | 53.7 | 59 | 28 | 51 | 8.8 | 0.21 | 0.23 | 0.20 | 0.59 | 0.13 | 0.40 | 0.0 | 16.0 | 15.0 |
sec | 2000_04 | dssp | 1ek0:A | 85.9 | 90 | 91 | 77 | 85 | 91 | 82 | 92.4 | 92 | 100 | 87 | 0.0 | 0.59 | 0.59 | 0.60 | 0.80 | 0.88 | 0.68 | 100.0 | 2.0 | 0.00 |
sec | 2000_04 | dssp | 1elq:A | 80.8 | 81 | 73 | 82 | 88 | 81 | 74 | 79.7 | 89 | 78 | 70 | 0.2 | 0.46 | 0.46 | 0.47 | 0.75 | 0.73 | 0.61 | 100.0 | 2.0 | 1.0 |
sec | 2000_04 | dssp | 1elr:A | 86.7 | 91 | 0 | 61 | 92 | 0 | 59 | 68.5 | 72 | 100 | 48 | 0.0 | 0.23 | 0.24 | 0.24 | 0.52 | 1.0 | 0.52 | 100.0 | 0.00 | 0.00 |
sec | 2000_04 | dssp | 1elu:A | 81.2 | 83 | 73 | 82 | 88 | 80 | 75 | 80.1 | 89 | 78 | 72 | 0.2 | 0.46 | 0.46 | 0.47 | 0.76 | 0.72 | 0.62 | 100.0 | 2.0 | 1.0 |
sec | 2000_04 | dssp | 1elw:A | 89.7 | 97 | 0 | 58 | 90 | 0 | 87 | 69.5 | 71 | 100 | 63 | 0.0 | 0.39 | 0.35 | 0.44 | 0.66 | 1.0 | 0.66 | 100.0 | 6.0 | 0.00 |
sec | 2000_04 | dssp | 1enu:A | 76.6 | 79 | 54 | 84 | 94 | 62 | 67 | 72.7 | 78 | 60 | 71 | 2.6 | 0.40 | 0.40 | 0.41 | 0.77 | 0.49 | 0.58 | 100.0 | 6.0 | 2.0 |
sec | 2000_04 | dssp | 1enw:A | 69.3 | 86 | 0 | 57 | 58 | 0 | 86 | 65.2 | 82 | 100 | 57 | 0.0 | 0.16 | 0.17 | 0.16 | 0.45 | 1.0 | 0.44 | 0.0 | 19.0 | 0.00 |
sec | 2000_04 | dssp | 1eqb:A | 83.9 | 85 | 73 | 85 | 93 | 67 | 80 | 81.8 | 84 | 70 | 82 | 1.9 | 0.49 | 0.50 | 0.49 | 0.80 | 0.65 | 0.70 | 100.0 | 3.0 | 1.0 |
sec | 2000_04 | dssp | 1fbn:A | 73.0 | 73 | 65 | 78 | 77 | 75 | 69 | 78.4 | 78 | 71 | 84 | 3.4 | 0.31 | 0.31 | 0.32 | 0.66 | 0.57 | 0.52 | 100.0 | 1.0 | 3.0 |
sec | 2000_04 | dssp | 1psz:A | 81.8 | 81 | 81 | 82 | 92 | 76 | 74 | 85.8 | 93 | 88 | 75 | 0.0 | 0.49 | 0.49 | 0.49 | 0.76 | 0.74 | 0.62 | 100.0 | 5.0 | 1.0 |
sec | 2000_04 | dssp | 1qa8:A | 80.7 | 75 | 69 | 90 | 96 | 84 | 72 | 72.7 | 85 | 71 | 65 | 0.0 | 0.49 | 0.48 | 0.52 | 0.81 | 0.68 | 0.63 | 100.0 | 6.0 | 4.0 |
sec | 2000_04 | dssp | 1qfl:A | 72.8 | 79 | 41 | 85 | 75 | 81 | 68 | 71.0 | 83 | 49 | 72 | 7.1 | 0.31 | 0.30 | 0.33 | 0.62 | 0.50 | 0.60 | 0.0 | 2.0 | 11.0 |
sec | 2000_04 | dssp | THIS_month:psum | 75.4 | 80 | 53 | 70 | 82 | 58 | 70 | 72.0 | 78.6 | 72.7 | 64.8 | 2.1 | 0.35 | 0.34 | 0.36 | 0.65 | 0.66 | 0.52 | 73.9 | 6.8 | 3.0 |
sec | 2000_04 | dssp | ALL_proteins:psum | 74.6 | 71 | 50 | 73 | 72 | 54 | 72 | 70.1 | 73.5 | 68.7 | 65.2 | 2.8 | 0.29 | 0.29 | 0.30 | 0.64 | 0.62 | 0.52 | 7822.5 | 6.4 | 5.0 |
sec | 2000_04 | dssp | ALL_proteins:sig | 9.0 | 26 | 30 | 14 | 26 | 32 | 11 | 13.5 | 23.7 | 25.7 | 16.3 | 3.7 | 0.53 | 0.60 | 0.46 | 0.20 | 0.25 | 0.14 | 7760.1 | 8.3 | 6.0 |
sec | 2000_04 | dssp | ALL_proteins:errsig | 0.57 | 1 | 1 | 0.90 | 1 | 2 | 0.74 | 0.86 | 1.5 | 1.6 | 1.0 | 0.24 | 0.03 | 0.03 | 0.03 | 0.01 | 0.01 | 0.00 | 492.7 | 0.52 | 0.38 |
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) ) |