# Perl-RDB EVA:method.rdb=results of all ids for method=yaspin of type=sec # # Copyright : Volker Eyrich & Burkhard Rost, CUBIC Columbia Univ, New York City # Email : rost@columbia.edu # WWW : http://cubic.bioc.columbia.edu/eva # Version : version 0.1: 2000_04_12 # # -------------------------------------------------------------------------------- # # Notation used : # # NOTATION BODY : # NOTATION date : date when added [yyyy_mm_dd] # NOTATION type : prediction type # NOTATION method : name of prediction method # NOTATION sots : standard of truth # NOTATION id : identifier of protein # NOTATION nres : number of residues # NOTATION nali : number of proteins aligned # NOTATION : average reliability index # NOTATION z : zscore for # NOTATION oH : number of helix residues observed # NOTATION oE : number of strand residues observed # NOTATION oL : number of loop residues observed # NOTATION Q3 : three-state per-residue accuracy (percentage of correctly predicted residues) # NOTATION Q3H%o : correctly predicted helix residues (percentage of helix observed) # NOTATION Q3H%p : correctly predicted helix residues (percentage of helix predicted) # NOTATION Q3E%o : correctly predicted strand residues (percentage of helix observed) # NOTATION Q3E%p : correctly predicted strand residues (percentage of helix predicted) # NOTATION Q3L%o : correctly predicted loop residues (percentage of helix observed) # NOTATION Q3L%p : correctly predicted loop residues (percentage of helix predicted) # NOTATION sov : per segment accuracy (three states) # NOTATION sovH : per segment accuracy for helix residues # NOTATION sovE : per segment accuracy for strand residues # NOTATION sovL : per segment accuracy for non-regular residues # NOTATION BAD : percentage of confused HELIX/STRAND residues (helix predicted as strand, strand predicted as helix) # NOTATION info : infoO + infoP / 2 # NOTATION infoO : information index accuracy (percentage of observed) # NOTATION infoP : information index accuracy (percentage of predicted) # NOTATION corrH : Matthews correlation index for helix # NOTATION corrE : Matthews correlation index for strand # NOTATION corrL : Matthews correlation index for loop # NOTATION classO : secondary structure class according to DSSP ( # NOTATION classP : secondary structure class predicted ( # NOTATION o1p1,o1p2,o1p3,o2p1,o2p2,o2p3,o3p1,o3p2,o3p3: oIpJ=number of residues observed in state I and predicted in state J # NOTATION rino:0,1,2,3,4,5,6,7,8,9,10: number of residues predicted at index level given (val/10) # NOTATION riok:0,1,2,3,4,5,6,7,8,9,10: number of residues correctly predicted at index level given (val/10) # date type method sots id nres nali z oH oE oL 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 classO classP contDH contDE o1p1,o1p2,o1p3,o2p1,o2p2,o2p3,o3p1,o3p2,o3p3 rino:0,1,2,3,4,5,6,7,8,9,10 riok:0,1,2,3,4,5,6,7,8,9,10 2004_01_27 sec yaspin dssp 1m36:A 32 ? 3.88 0.000 31 12 56 71.9 100 62 50 50 61 91 76.6 100 37 72 3.1 0.351 0.36 0.35 0.674 0.428 0.553 100.0 other other 18.00 0.00 10,0,0,1,2,1,5,2,11 6,5,4,1,0,4,2,5,4,1,0 4,5,2,0,0,2,2,4,3,1,0 2004_01_27 sec yaspin dssp 1nnv:A 106 ? 2.58 0.000 22 21 55 65.1 50 52 65 46 71 82 53.6 62 69 48 10.3 0.193 0.20 0.19 0.371 0.401 0.517 100.0 other other 0.00 8.00 12,5,7,6,15,2,5,12,42 18,26,15,15,7,8,14,3,0,0,0 6,17,8,12,5,7,11,3,0,0,0 2004_01_20 sec yaspin dssp 1p57:A 109 ? 3.06 0.000 20 34 44 67.0 18 40 73 71 83 68 64.9 10 69 85 8.2 0.214 0.20 0.23 0.156 0.578 0.520 100.0 other other 11.00 0.00 4,6,12,3,28,7,3,5,41 13,26,12,17,9,9,13,7,3,0,0 6,13,9,10,8,7,10,7,3,0,0 2004_01_13 sec yaspin dssp 1p94:A 75 ? 3.63 0.000 49 9 41 72.0 78 93 57 33 67 65 62.7 84 41 48 0.0 0.382 0.40 0.36 0.742 0.360 0.425 100.0 other other 8.00 6.00 29,0,8,0,4,3,2,8,21 4,13,11,8,13,10,6,6,3,1,0 3,9,5,5,8,10,6,5,2,1,0 2004_01_20 sec yaspin dssp 1pc6:A 141 ? 3.22 0.000 50 15 34 78.0 88 90 63 60 68 68 84.3 100 68 68 0.7 0.423 0.42 0.42 0.787 0.550 0.526 100.0 other other 0.00 0.00 63,0,8,1,14,7,6,9,33 24,26,22,13,10,10,12,12,9,3,0 21,17,13,9,7,7,12,12,9,3,0 2004_01_20 sec yaspin dssp 1q7l:B 87 ? 3.71 0.000 47 13 39 70.1 51 95 75 42 91 70 75.9 68 69 87 11.4 0.329 0.34 0.32 0.563 0.475 0.650 100.0 other other 21.00 10.00 21,10,10,0,9,3,1,2,31 7,12,14,9,10,12,11,8,2,2,0 3,8,8,5,8,8,10,7,2,2,0 2004_03_09 sec yaspin dssp 1nng:A 141 ? 5.11 0.000 23 38 38 86.5 87 90 90 87 81 83 84.0 90 88 75 0.0 0.596 0.59 0.60 0.860 0.821 0.713 100.0 other other 0.00 1.00 29,0,4,0,49,5,3,7,44 8,10,15,8,11,19,19,16,24,11,0 2,6,9,8,9,19,18,16,24,11,0 2004_03_09 sec yaspin dssp 1oyi:A 62 ? 4.73 0.000 51 11 37 80.6 90 87 71 50 69 84 87.1 100 50 80 3.2 0.481 0.49 0.47 0.774 0.536 0.648 100.0 other other 1.00 4.00 29,0,3,2,5,0,2,5,16 3,7,6,7,9,3,7,5,10,5,0 1,4,4,6,8,1,6,5,10,5,0 2004_03_09 sec yaspin dssp 1pjv:A 31 ? 2.87 0.000 29 32 38 38.7 44 80 0 0 66 40 27.3 60 0 25 9.6 0.272 0.24 0.30 0.492 -0.338 0.035 100.0 other other 12.00 12.00 4,3,2,0,0,10,1,3,8 3,5,7,5,7,1,1,1,0,1,0 1,2,1,3,3,0,1,0,0,1,0 2004_03_09 sec yaspin dssp 1qw2:A 101 ? 3.96 0.000 24 30 44 79.2 72 75 83 83 80 78 80.5 68 83 84 1.9 0.433 0.43 0.43 0.650 0.767 0.620 100.0 other other 0.00 0.00 18,0,7,2,26,3,4,5,36 7,13,16,15,9,7,12,11,9,2,0 3,8,15,12,7,5,10,10,8,2,0 2004_03_09 sec yaspin dssp 1r4g:A 52 ? 4.77 0.000 69 0 30 76.9 75 90 0 0 81 81 80.6 77 100 86 11.5 0.379 0.46 0.30 0.525 1.000 0.729 100.0 other other 11.00 11.00 27,6,3,0,0,0,3,0,13 5,1,8,4,5,5,7,8,5,4,0 3,1,3,3,4,4,7,7,4,4,0 2004_02_24 sec yaspin dssp 1nxh:A 123 ? 3.13 0.000 73 0 26 63.4 74 83 0 0 31 34 62.4 75 100 24 3.2 0.096 0.12 0.08 0.315 1.000 0.107 0.0 all-alpha other 8.00 10.00 68,4,19,0,0,0,13,9,10 17,22,16,23,12,9,8,8,7,1,0 8,14,7,14,7,7,6,7,7,1,0 2004_02_17 sec yaspin dssp 1oj5:A 91 ? 3.43 0.000 30 34 35 79.1 96 81 77 82 65 72 75.6 98 68 65 0.0 0.508 0.51 0.51 0.834 0.702 0.533 0.0 other alpha-beta 5.00 2.00 27,0,1,0,24,7,6,5,21 10,17,9,7,16,15,6,7,4,0,0 8,14,4,6,12,12,5,7,4,0,0 2004_03_23 sec yaspin dssp 1pgy:A 46 ? 4.24 0.000 71 0 28 73.9 72 88 0 0 76 52 89.1 93 100 76 0.0 0.165 0.18 0.15 0.454 1.000 0.454 100.0 other other 13.00 0.00 24,0,9,0,0,0,3,0,10 4,5,5,6,5,3,7,5,4,2,0 2,3,2,4,5,1,6,5,4,2,0 2004_02_24 sec yaspin dssp 1pzq:A 59 ? 4.36 0.000 55 0 44 78.0 72 96 0 0 84 70 85.0 100 100 71 0.0 0.391 0.43 0.35 0.692 1.000 0.570 100.0 other other 13.00 5.00 24,0,9,0,0,0,1,3,22 2,6,8,10,5,8,3,12,2,3,0 2,5,5,7,3,5,3,11,2,3,0 2004_02_24 sec yaspin dssp 1pzr:A 59 ? 4.64 0.000 71 0 28 88.1 92 100 0 0 76 81 81.5 100 100 55 0.0 0.680 0.78 0.58 0.888 1.000 0.706 100.0 other other 5.00 6.00 39,0,3,0,0,0,0,4,13 4,5,2,7,5,13,8,10,4,1,0 4,2,2,6,5,11,7,10,4,1,0 2004_02_24 sec yaspin dssp 1qz8:A 110 ? 3.94 0.000 12 46 40 73.6 0 0 80 73 88 74 78.4 0 90 89 9.0 0.300 0.25 0.35 1.000 0.548 0.662 0.0 other all-beta 12.00 4.00 0,10,4,0,41,10,0,5,40 6,14,21,15,8,9,16,9,12,0,0 3,8,13,11,6,8,11,9,12,0,0 2004_03_23 sec yaspin dssp 1rkl:A 35 ? 4.51 0.000 65 0 34 34.3 8 50 0 0 83 76 41.9 16 100 91 51.4 0.471 0.56 0.38 -0.118 1.000 0.690 100.0 other other 54.00 51.00 2,18,3,0,0,0,2,0,10 0,5,5,3,4,4,4,8,0,2,0 0,2,3,1,0,1,2,1,0,2,0 2004_03_02 sec yaspin dssp 1rqt:A 36 ? 4.50 0.000 61 0 38 88.9 100 84 0 0 71 100 69.4 68 100 71 0.0 0.571 0.54 0.61 0.777 1.000 0.777 100.0 other other 11.00 0.00 22,0,0,0,0,0,4,0,10 2,7,6,1,0,4,1,8,5,2,0 2,5,5,1,0,4,0,8,5,2,0 2004_02_24 sec yaspin dssp 1s0y:B 55 ? 2.85 0.000 45 29 25 65.5 52 86 75 85 78 42 70.8 72 87 49 1.8 0.329 0.33 0.33 0.506 0.728 0.366 100.0 other other 18.00 3.00 13,1,11,0,12,4,2,1,11 3,15,14,5,3,5,8,2,0,0,0 2,7,6,3,3,5,8,2,0,0,0 2004_03_23 sec yaspin dssp 1s4z:C 29 ? 3.38 0.000 0 10 89 72.4 0 0 66 22 73 95 63.3 100 60 63 0.0 0.072 0.09 0.05 1.000 0.261 0.261 100.0 other other 0.00 20.00 0,0,0,0,2,1,0,7,19 7,3,2,3,4,3,1,4,1,1,0 5,3,1,1,2,3,1,3,1,1,0 2004_02_24 sec yaspin dssp 1s5l:I 37 ? 5.46 0.000 59 0 40 37.8 0 0 0 0 93 100 40.5 0 100 100 59.4 0.843 0.83 0.85 1.000 1.000 0.944 100.0 other other 59.00 62.00 0,22,0,0,0,0,0,1,14 0,2,2,5,3,2,6,14,2,1,0 0,0,1,4,2,0,3,3,0,1,0 2004_02_24 sec yaspin dssp 1s5l:J 37 ? 4.24 0.000 67 0 32 18.9 0 0 0 0 58 41 19.5 0 100 60 40.5 0.022 0.02 0.02 1.000 1.000 0.172 100.0 other other 67.00 54.00 0,15,10,0,0,0,0,5,7 3,6,6,1,3,1,4,9,4,0,0 0,1,2,0,0,0,1,2,1,0,0 2004_02_24 sec yaspin dssp 1s5l:L 36 ? 4.31 0.000 63 0 36 94.4 91 100 0 0 100 86 100.0 100 100 100 0.0 0.736 0.75 0.72 0.889 1.000 0.889 100.0 other other 5.00 0.00 21,0,2,0,0,0,0,0,13 4,6,4,1,1,2,8,5,4,1,0 4,4,4,1,1,2,8,5,4,1,0 2004_02_24 sec yaspin dssp 1s5l:M 30 ? 3.93 0.000 80 0 20 20.0 0 0 0 0 100 66 20.0 0 100 100 70.0 0.562 0.62 0.51 1.000 1.000 0.763 100.0 other other 80.00 70.00 0,21,3,0,0,0,0,0,6 4,4,2,3,7,0,2,4,3,1,0 0,1,0,0,3,0,0,1,0,1,0 2004_02_24 sec yaspin dssp 1s5l:T 31 ? 2.13 0.000 61 0 38 93.5 89 100 0 0 100 85 98.1 100 100 95 0.0 0.711 0.72 0.70 0.875 1.000 0.875 100.0 other other 6.00 0.00 17,0,2,0,0,0,0,0,12 14,3,2,4,2,2,1,2,0,1,0 12,3,2,4,2,2,1,2,0,1,0 2004_02_24 sec yaspin dssp 1s5l:X 39 ? 2.67 0.000 74 0 25 15.4 6 33 0 0 40 30 21.3 12 100 47 46.1 0.136 0.17 0.10 -0.400 1.000 0.083 100.0 other other 58.00 51.00 2,18,9,0,0,0,4,2,4 6,9,6,5,3,5,4,1,0,0,0 3,1,1,1,0,0,0,0,0,0,0 2004_02_24 sec yaspin dssp 1s5l:Z 58 ? 3.91 0.000 84 0 15 31.0 26 100 0 0 55 33 40.1 38 100 47 44.8 0.104 0.15 0.06 0.230 1.000 0.290 100.0 other other 62.00 51.00 13,26,10,0,0,0,0,4,5 6,7,10,5,8,6,3,5,2,6,0 1,1,0,2,1,1,0,5,1,6,0 2004_02_24 sec yaspin dssp 1s68:A 233 ? 3.25 0.000 27 29 42 67.8 61 74 72 68 69 64 72.7 70 74 73 2.5 0.254 0.25 0.26 0.565 0.571 0.401 100.0 other other 4.00 1.00 40,4,21,2,49,17,12,19,69 15,55,49,25,22,14,16,24,10,3,0 5,36,25,16,17,10,14,22,10,3,0 2004_02_24 sec yaspin dssp 1s6c:B 21 ? 2.29 0.000 66 0 33 61.9 42 100 0 0 100 46 65.2 64 100 67 0.0 0.231 0.22 0.24 0.447 1.000 0.447 100.0 other other 38.00 0.00 6,0,8,0,0,0,0,0,7 3,9,2,3,0,1,2,0,0,1,0 2,7,0,3,0,0,0,0,0,1,0 2004_02_17 sec yaspin dssp 1s7b:A 105 ? 4.55 0.000 69 0 30 64.8 75 78 0 0 40 59 78.0 89 100 52 8.5 0.070 0.08 0.06 0.277 1.000 0.320 0.0 all-alpha other 2.00 12.00 55,9,9,0,0,0,15,4,13 22,12,6,7,2,7,6,10,13,20,0 7,5,3,2,1,6,4,8,13,19,0 2004_02_17 sec yaspin dssp 1ufi:A 48 ? 3.65 0.000 72 0 27 64.6 51 100 0 0 100 61 71.5 62 100 94 18.7 0.392 0.50 0.28 0.472 1.000 0.691 100.0 other other 35.00 18.00 18,9,8,0,0,0,0,0,13 4,9,6,5,6,6,4,4,3,1,0 1,5,3,3,4,5,3,3,3,1,0 2004_02_17 sec yaspin dssp 1ujx:A 118 ? 3.86 0.000 0 30 69 78.0 0 0 80 60 76 90 69.6 100 73 68 0.0 0.231 0.24 0.22 1.000 0.537 0.537 100.0 other other 0.00 10.00 0,0,0,0,29,7,0,19,63 6,17,15,23,10,15,9,14,8,1,0 5,10,9,18,9,12,6,14,8,1,0 2004_03_30 sec yaspin dssp 1v74:A 106 ? 3.48 0.000 36 19 43 74.5 56 100 66 63 93 69 67.3 71 57 69 4.7 0.383 0.37 0.40 0.670 0.562 0.621 100.0 other other 16.00 0.00 22,5,12,0,14,7,0,3,43 14,17,10,14,14,8,15,9,4,1,0 9,14,7,10,10,6,10,8,4,1,0 2004_03_30 sec yaspin dssp 1v74:B 86 ? 2.86 0.000 62 2 34 61.6 51 96 0 0 83 59 63.4 58 0 79 12.7 0.225 0.26 0.19 0.498 -0.070 0.505 0.0 all-alpha other 29.00 15.00 28,11,15,0,0,2,1,4,25 13,22,8,14,10,3,5,8,2,1,0 6,12,4,10,7,1,4,6,2,1,0 2004_03_30 sec yaspin dssp 1vjq:A 73 ? 4.34 0.000 32 28 38 84.9 87 100 71 88 92 74 86.7 100 90 72 0.0 0.612 0.60 0.62 0.908 0.723 0.709 0.0 alpha-beta other 4.00 5.00 21,0,3,0,15,6,0,2,26 5,13,5,8,6,7,8,8,10,3,0 4,7,5,7,5,7,7,7,10,3,0 2004_04_13 sec yaspin dssp 1nei:A 59 ? 3.92 0.000 33 20 45 83.1 85 100 83 55 81 91 87.4 85 88 88 5.0 0.592 0.60 0.58 0.888 0.579 0.762 100.0 other other 5.00 10.00 17,3,0,0,10,2,0,5,22 4,11,9,4,7,5,6,5,6,2,0 3,7,5,4,7,5,5,5,6,2,0 2004_04_13 sec yaspin dssp 1pv0:A 45 ? 3.96 0.000 60 0 40 55.6 48 86 0 0 66 85 47.3 48 100 46 26.6 0.257 0.32 0.20 0.384 1.000 0.627 100.0 other other 26.00 35.00 13,12,2,0,0,0,2,4,12 4,4,9,8,3,2,4,5,3,3,0 1,2,3,1,1,2,4,5,3,3,0 2004_04_13 sec yaspin dssp 1rk8:C 33 ? 2.88 0.000 0 39 60 66.7 0 0 38 62 85 68 53.7 100 42 61 0.0 0.057 0.05 0.06 1.000 0.267 0.267 100.0 other other 0.00 15.00 0,0,0,0,5,8,0,3,17 3,7,7,5,4,2,2,3,0,0,0 0,3,5,5,2,2,2,3,0,0,0 2004_04_13 sec yaspin dssp 1rli:A 30 ? 5.17 0.000 33 23 43 83.3 100 83 85 75 69 90 90.6 100 85 85 0.0 0.585 0.59 0.58 0.866 0.736 0.665 100.0 other other 6.00 3.00 10,0,0,0,6,1,2,2,9 3,3,0,4,2,3,5,1,1,8,0 2,3,0,3,0,2,5,1,1,8,0