# TARGET T0283 # Using neural net dunbrack-40pc-3157-t06-IDGaaH13-3-13-7-13-9-13-11-pb-seeded.net # This is a 4-layer network, with # window units # 3 13 # 7 13 # 9 13 # 11 16 (1 pb ) # The input amino acid frequencies were determined from # alignment /projects/compbio/experiments/protein-predict/casp7/T0283/T0283.t2k-thin90.a2m.gz # with weighted counts, using HenikoffWeight(1.3 bits/column, 1) # The weighting was determined by the posterior distribution # after regularizing with /projects/compbio/lib/recode3.20comp. # Counts were regularized to probabilities using # /projects/compbio/lib/recode3.20comp # Total sequence weight for alignment was 12.5344 # Pos AA A B C D E F G H I J K L M N O P 10N 1S 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 5N 1 M 0.024 0.021 0.048 0.059 0.001 0.062 0.003 0.003 0.003 0.003 0.107 0.112 0.543 0.001 0.004 0.008 2 S 0.006 0.013 0.024 0.031 0.001 0.073 0.001 0.001 0.001 0.001 0.065 0.176 0.601 0.001 0.001 0.003 3 F 0.001 0.005 0.004 0.012 0.001 0.035 0.001 0.001 0.001 0.001 0.075 0.092 0.770 0.001 0.001 0.002 4 I 0.001 0.001 0.002 0.003 0.001 0.010 0.001 0.001 0.001 0.001 0.026 0.059 0.896 0.001 0.001 0.001 5 E 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.015 0.974 0.001 0.001 0.001 6 K 0.001 0.001 0.001 0.003 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.009 0.976 0.001 0.001 0.006 7 M 0.001 0.001 0.008 0.003 0.001 0.004 0.021 0.001 0.001 0.001 0.003 0.003 0.905 0.039 0.003 0.007 8 I 0.001 0.006 0.016 0.004 0.001 0.005 0.012 0.003 0.001 0.001 0.008 0.005 0.854 0.011 0.068 0.008 9 G 0.002 0.005 0.007 0.009 0.001 0.006 0.003 0.002 0.003 0.002 0.010 0.011 0.832 0.008 0.013 0.085 10 S 0.032 0.004 0.007 0.003 0.002 0.016 0.026 0.001 0.001 0.001 0.020 0.024 0.741 0.085 0.005 0.032 11 L 0.003 0.007 0.027 0.002 0.001 0.008 0.015 0.008 0.001 0.001 0.061 0.035 0.758 0.012 0.056 0.007 12 N 0.002 0.014 0.019 0.008 0.001 0.008 0.006 0.005 0.004 0.003 0.015 0.088 0.751 0.008 0.019 0.049 13 D 0.025 0.003 0.011 0.006 0.001 0.015 0.010 0.002 0.002 0.002 0.025 0.026 0.813 0.018 0.009 0.032 14 K 0.005 0.005 0.045 0.004 0.001 0.014 0.004 0.002 0.001 0.001 0.062 0.039 0.789 0.002 0.022 0.007 15 R 0.002 0.003 0.007 0.003 0.001 0.010 0.001 0.001 0.001 0.001 0.046 0.076 0.841 0.001 0.001 0.008 16 E 0.003 0.004 0.002 0.002 0.001 0.010 0.001 0.001 0.001 0.001 0.014 0.084 0.875 0.001 0.001 0.002 17 W 0.001 0.001 0.002 0.001 0.001 0.007 0.001 0.001 0.001 0.001 0.012 0.015 0.960 0.001 0.001 0.001 18 K 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.016 0.027 0.954 0.001 0.001 0.001 19 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.017 0.979 0.001 0.001 0.001 20 M 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.996 0.001 0.001 0.001 21 E 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.993 0.001 0.001 0.001 22 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.993 0.001 0.001 0.001 23 R 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.991 0.002 0.001 0.002 24 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.988 0.004 0.002 0.001 25 K 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.006 0.980 0.002 0.005 0.003 26 A 0.003 0.001 0.004 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.635 0.063 0.009 0.279 27 L 0.003 0.001 0.235 0.001 0.001 0.003 0.021 0.001 0.001 0.001 0.001 0.001 0.685 0.003 0.033 0.014 28 P 0.001 0.001 0.007 0.001 0.001 0.079 0.005 0.001 0.001 0.001 0.018 0.002 0.883 0.001 0.001 0.003 29 K 0.001 0.014 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.473 0.093 0.407 0.003 0.001 0.001 30 E 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.006 0.415 0.553 0.003 0.006 0.005 31 Y 0.001 0.001 0.013 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.004 0.971 0.001 0.002 0.004 32 H 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.008 0.011 0.976 0.001 0.001 0.001 33 H 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.007 0.016 0.975 0.001 0.001 0.001 34 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.013 0.984 0.001 0.001 0.001 35 Y 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.996 0.001 0.001 0.001 36 K 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.005 0.992 0.001 0.001 0.001 37 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.996 0.001 0.001 0.001 38 I 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.999 0.001 0.001 0.001 39 Q 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.998 0.001 0.001 0.001 40 K 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.995 0.001 0.001 0.001 41 Y 0.001 0.001 0.005 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.951 0.006 0.003 0.027 42 M 0.002 0.004 0.025 0.009 0.001 0.002 0.012 0.001 0.001 0.001 0.001 0.002 0.908 0.007 0.011 0.018 43 W 0.005 0.011 0.084 0.043 0.004 0.010 0.031 0.001 0.001 0.001 0.003 0.003 0.657 0.055 0.013 0.079 44 T 0.017 0.017 0.060 0.067 0.056 0.025 0.146 0.007 0.001 0.002 0.012 0.004 0.224 0.285 0.029 0.048 45 S 0.010 0.089 0.106 0.076 0.040 0.041 0.137 0.059 0.008 0.004 0.029 0.015 0.118 0.054 0.157 0.056 46 G 0.029 0.186 0.112 0.198 0.004 0.018 0.016 0.035 0.061 0.024 0.018 0.021 0.044 0.004 0.041 0.187 47 G 0.266 0.047 0.182 0.151 0.007 0.125 0.012 0.005 0.024 0.041 0.015 0.042 0.038 0.001 0.005 0.039 48 P 0.070 0.044 0.133 0.059 0.036 0.317 0.019 0.007 0.002 0.005 0.229 0.027 0.037 0.005 0.002 0.005 49 T 0.008 0.265 0.039 0.152 0.003 0.042 0.002 0.071 0.004 0.003 0.159 0.216 0.021 0.002 0.012 0.003 50 D 0.004 0.016 0.011 0.030 0.003 0.390 0.003 0.005 0.019 0.019 0.034 0.303 0.151 0.001 0.003 0.009 51 W 0.006 0.004 0.010 0.003 0.002 0.024 0.005 0.002 0.001 0.001 0.580 0.047 0.310 0.002 0.001 0.003 52 Q 0.002 0.012 0.007 0.006 0.001 0.005 0.001 0.003 0.001 0.001 0.040 0.669 0.243 0.001 0.008 0.002 53 D 0.002 0.001 0.005 0.004 0.001 0.012 0.002 0.001 0.001 0.001 0.011 0.038 0.893 0.003 0.004 0.022 54 T 0.002 0.001 0.006 0.001 0.001 0.008 0.002 0.001 0.001 0.001 0.031 0.017 0.925 0.001 0.002 0.003 55 K 0.001 0.001 0.003 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.011 0.036 0.941 0.001 0.001 0.001 56 R 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.012 0.979 0.001 0.001 0.001 57 I 0.001 0.001 0.001 0.001 0.001 0.003 0.002 0.001 0.001 0.001 0.003 0.010 0.970 0.007 0.001 0.003 58 F 0.001 0.001 0.001 0.001 0.001 0.002 0.004 0.001 0.001 0.001 0.005 0.006 0.970 0.005 0.005 0.001 59 G 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.007 0.983 0.001 0.003 0.001 60 G 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.008 0.987 0.001 0.001 0.002 61 I 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.009 0.987 0.001 0.001 0.001 62 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.007 0.992 0.001 0.001 0.001 63 D 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.999 0.001 0.001 0.001 64 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.997 0.001 0.001 0.001 65 F 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.997 0.001 0.001 0.001 66 E 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.990 0.005 0.001 0.001 67 E 0.001 0.001 0.001 0.002 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.002 0.963 0.006 0.015 0.007 68 G 0.001 0.001 0.010 0.001 0.001 0.001 0.012 0.001 0.001 0.001 0.001 0.001 0.926 0.005 0.007 0.034 69 A 0.004 0.004 0.008 0.002 0.002 0.007 0.012 0.001 0.001 0.001 0.007 0.006 0.917 0.015 0.004 0.012 70 A 0.001 0.001 0.001 0.001 0.018 0.001 0.060 0.001 0.001 0.001 0.001 0.001 0.006 0.912 0.001 0.001 71 E 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.041 0.001 0.001 0.001 0.001 0.003 0.001 0.953 0.001 72 G 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.092 0.017 0.001 0.001 0.003 0.001 0.001 0.880 73 K 0.988 0.001 0.006 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 74 K 0.007 0.010 0.257 0.011 0.001 0.684 0.001 0.001 0.001 0.002 0.002 0.010 0.013 0.001 0.001 0.002 75 V 0.001 0.011 0.004 0.020 0.001 0.263 0.001 0.001 0.001 0.001 0.671 0.006 0.021 0.001 0.001 0.001 76 T 0.001 0.356 0.006 0.027 0.001 0.002 0.001 0.001 0.001 0.001 0.004 0.590 0.011 0.001 0.001 0.001 77 D 0.005 0.004 0.071 0.225 0.003 0.016 0.008 0.002 0.004 0.001 0.013 0.014 0.591 0.003 0.007 0.033 78 L 0.008 0.008 0.642 0.031 0.020 0.008 0.092 0.001 0.001 0.001 0.007 0.004 0.109 0.033 0.002 0.034 79 T 0.013 0.043 0.088 0.215 0.004 0.135 0.006 0.140 0.002 0.005 0.016 0.026 0.195 0.002 0.097 0.011 80 G 0.006 0.007 0.014 0.023 0.014 0.354 0.008 0.003 0.025 0.051 0.194 0.013 0.232 0.006 0.001 0.048 81 E 0.053 0.180 0.008 0.043 0.001 0.006 0.001 0.023 0.001 0.001 0.259 0.309 0.112 0.001 0.004 0.002 82 D 0.001 0.001 0.002 0.002 0.001 0.351 0.001 0.001 0.002 0.003 0.007 0.249 0.380 0.001 0.001 0.002 83 V 0.001 0.001 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.224 0.014 0.756 0.001 0.001 0.001 84 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.515 0.478 0.001 0.001 0.001 85 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.995 0.001 0.001 0.001 86 F 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.993 0.001 0.001 0.002 87 C 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.997 0.001 0.001 0.001 88 D 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.002 0.996 0.001 0.001 0.001 89 E 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.995 0.001 0.001 0.001 90 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.975 0.013 0.002 0.007 91 M 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.972 0.012 0.006 0.003 92 K 0.001 0.001 0.003 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.936 0.012 0.015 0.026 93 D 0.004 0.002 0.012 0.001 0.001 0.002 0.026 0.001 0.001 0.001 0.003 0.002 0.708 0.094 0.020 0.124 94 T 0.005 0.006 0.061 0.001 0.001 0.013 0.016 0.001 0.001 0.001 0.013 0.008 0.782 0.005 0.070 0.018 95 K 0.008 0.021 0.037 0.005 0.001 0.017 0.019 0.002 0.002 0.001 0.097 0.032 0.639 0.034 0.007 0.078 96 T 0.035 0.043 0.033 0.014 0.001 0.017 0.010 0.004 0.001 0.001 0.041 0.164 0.588 0.007 0.028 0.014 97 W 0.006 0.024 0.105 0.014 0.002 0.028 0.026 0.003 0.003 0.001 0.034 0.033 0.597 0.026 0.013 0.086 98 M 0.010 0.023 0.076 0.029 0.001 0.033 0.020 0.006 0.001 0.001 0.034 0.066 0.657 0.004 0.028 0.011 99 D 0.003 0.004 0.017 0.007 0.002 0.104 0.006 0.004 0.001 0.003 0.071 0.047 0.710 0.005 0.005 0.011 100 K 0.008 0.020 0.011 0.014 0.001 0.011 0.006 0.007 0.002 0.001 0.232 0.092 0.560 0.016 0.007 0.012 101 Y 0.004 0.016 0.021 0.016 0.001 0.015 0.004 0.002 0.002 0.001 0.008 0.202 0.653 0.005 0.033 0.016 102 R 0.004 0.002 0.054 0.008 0.001 0.009 0.012 0.001 0.001 0.001 0.023 0.006 0.822 0.007 0.007 0.042 103 T 0.009 0.010 0.030 0.015 0.001 0.011 0.007 0.002 0.001 0.001 0.034 0.039 0.825 0.003 0.006 0.008 104 K 0.008 0.022 0.032 0.025 0.005 0.036 0.029 0.003 0.003 0.002 0.015 0.042 0.646 0.071 0.005 0.054 105 L 0.005 0.024 0.059 0.028 0.007 0.038 0.080 0.007 0.001 0.001 0.026 0.026 0.576 0.041 0.068 0.014 106 N 0.003 0.017 0.060 0.016 0.002 0.062 0.014 0.022 0.003 0.004 0.037 0.029 0.592 0.008 0.082 0.050 107 D 0.037 0.028 0.027 0.033 0.001 0.012 0.005 0.006 0.014 0.007 0.184 0.050 0.497 0.008 0.009 0.082 108 S 0.095 0.030 0.060 0.019 0.007 0.032 0.080 0.002 0.006 0.001 0.023 0.114 0.306 0.176 0.008 0.041 109 I 0.005 0.048 0.482 0.041 0.001 0.008 0.032 0.010 0.001 0.001 0.011 0.012 0.193 0.003 0.134 0.019 110 G 0.009 0.027 0.196 0.125 0.017 0.081 0.050 0.004 0.017 0.017 0.012 0.024 0.237 0.011 0.005 0.166 111 R 0.154 0.047 0.096 0.127 0.055 0.074 0.060 0.023 0.003 0.005 0.109 0.023 0.164 0.038 0.008 0.014 112 D 0.008 0.133 0.067 0.077 0.031 0.150 0.037 0.067 0.013 0.009 0.097 0.108 0.106 0.032 0.046 0.019