# TARGET T0302 # 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/T0302/T0302.t06-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 386 # 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 S 0.140 0.095 0.192 0.248 0.005 0.060 0.024 0.017 0.015 0.010 0.036 0.054 0.052 0.003 0.019 0.031 2 M 0.062 0.099 0.275 0.253 0.008 0.091 0.013 0.004 0.019 0.006 0.034 0.029 0.037 0.003 0.004 0.062 3 V 0.039 0.122 0.268 0.514 0.002 0.007 0.003 0.003 0.001 0.001 0.008 0.012 0.008 0.001 0.002 0.007 4 S 0.002 0.003 0.013 0.028 0.002 0.926 0.001 0.001 0.001 0.003 0.001 0.008 0.009 0.001 0.001 0.001 5 P 0.001 0.007 0.002 0.005 0.001 0.027 0.001 0.001 0.001 0.001 0.944 0.002 0.010 0.001 0.001 0.001 6 E 0.001 0.062 0.002 0.018 0.001 0.003 0.001 0.001 0.002 0.001 0.007 0.894 0.008 0.001 0.001 0.001 7 E 0.004 0.006 0.064 0.049 0.002 0.050 0.009 0.002 0.002 0.001 0.016 0.043 0.722 0.004 0.008 0.017 8 A 0.004 0.016 0.125 0.033 0.004 0.034 0.034 0.002 0.001 0.001 0.068 0.019 0.627 0.009 0.005 0.020 9 V 0.007 0.052 0.034 0.079 0.004 0.029 0.017 0.008 0.002 0.001 0.026 0.125 0.585 0.008 0.014 0.010 10 K 0.010 0.013 0.043 0.062 0.031 0.047 0.087 0.008 0.008 0.005 0.027 0.018 0.370 0.179 0.013 0.079 11 W 0.017 0.065 0.142 0.067 0.001 0.015 0.008 0.051 0.003 0.002 0.043 0.027 0.275 0.003 0.241 0.040 12 G 0.024 0.013 0.073 0.029 0.004 0.141 0.017 0.002 0.023 0.037 0.037 0.043 0.392 0.008 0.005 0.152 13 E 0.172 0.100 0.073 0.078 0.001 0.011 0.002 0.009 0.001 0.001 0.210 0.060 0.269 0.001 0.007 0.006 14 S 0.001 0.004 0.003 0.005 0.001 0.569 0.001 0.001 0.001 0.002 0.008 0.192 0.209 0.001 0.001 0.002 15 F 0.001 0.001 0.001 0.001 0.001 0.029 0.001 0.001 0.001 0.001 0.458 0.017 0.490 0.001 0.001 0.001 16 D 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.012 0.635 0.343 0.001 0.001 0.001 17 K 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.991 0.001 0.001 0.001 18 L 0.001 0.001 0.011 0.001 0.001 0.001 0.012 0.001 0.001 0.001 0.003 0.002 0.932 0.017 0.004 0.016 19 L 0.001 0.002 0.013 0.002 0.001 0.001 0.022 0.001 0.001 0.001 0.002 0.004 0.901 0.017 0.016 0.019 20 S 0.004 0.006 0.070 0.012 0.001 0.002 0.019 0.003 0.001 0.001 0.002 0.002 0.574 0.054 0.028 0.221 21 H 0.006 0.002 0.017 0.002 0.001 0.105 0.012 0.001 0.001 0.002 0.007 0.004 0.797 0.003 0.017 0.023 22 R 0.002 0.003 0.006 0.001 0.001 0.007 0.007 0.001 0.001 0.001 0.722 0.007 0.222 0.015 0.001 0.004 23 D 0.001 0.010 0.001 0.001 0.001 0.002 0.001 0.002 0.001 0.001 0.017 0.862 0.089 0.001 0.014 0.001 24 G 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.022 0.023 0.929 0.001 0.001 0.019 25 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.010 0.054 0.934 0.001 0.001 0.001 26 E 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.035 0.960 0.001 0.001 0.001 27 A 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 28 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 0.998 0.001 0.001 0.001 29 T 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 30 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 0.998 0.001 0.001 0.001 31 F 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.960 0.009 0.002 0.025 32 L 0.001 0.001 0.005 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.965 0.004 0.011 0.006 33 K 0.001 0.003 0.013 0.002 0.001 0.003 0.006 0.001 0.001 0.001 0.003 0.001 0.900 0.014 0.009 0.045 34 T 0.012 0.008 0.014 0.006 0.001 0.010 0.027 0.001 0.001 0.001 0.018 0.012 0.803 0.033 0.017 0.037 35 E 0.014 0.046 0.093 0.012 0.001 0.013 0.024 0.004 0.002 0.001 0.031 0.026 0.558 0.027 0.051 0.097 36 F 0.015 0.064 0.162 0.047 0.001 0.014 0.013 0.003 0.003 0.002 0.017 0.065 0.473 0.004 0.027 0.089 37 S 0.010 0.002 0.018 0.003 0.001 0.287 0.002 0.001 0.001 0.002 0.029 0.029 0.609 0.001 0.002 0.005 38 E 0.002 0.005 0.002 0.001 0.001 0.015 0.001 0.001 0.001 0.001 0.634 0.050 0.288 0.001 0.001 0.001 39 E 0.001 0.007 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.015 0.746 0.225 0.001 0.001 0.001 40 N 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.011 0.981 0.001 0.001 0.002 41 I 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.003 0.017 0.977 0.001 0.001 0.001 42 E 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.006 0.988 0.001 0.001 0.001 43 F 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 44 W 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 45 I 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 46 A 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.984 0.002 0.001 0.009 47 C 0.001 0.001 0.001 0.001 0.001 0.002 0.003 0.001 0.001 0.001 0.003 0.001 0.975 0.011 0.004 0.001 48 E 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.006 0.958 0.006 0.014 0.006 49 D 0.002 0.001 0.002 0.002 0.001 0.001 0.004 0.001 0.002 0.001 0.001 0.005 0.769 0.063 0.011 0.137 50 F 0.008 0.002 0.092 0.002 0.001 0.001 0.060 0.001 0.001 0.001 0.002 0.002 0.747 0.016 0.037 0.031 51 K 0.005 0.014 0.130 0.010 0.001 0.014 0.045 0.004 0.001 0.001 0.009 0.007 0.637 0.020 0.022 0.081 52 K 0.067 0.059 0.075 0.075 0.006 0.032 0.036 0.009 0.013 0.005 0.035 0.034 0.335 0.066 0.025 0.125 53 S 0.035 0.054 0.120 0.029 0.030 0.083 0.177 0.006 0.006 0.004 0.048 0.031 0.222 0.067 0.029 0.058 54 K 0.019 0.256 0.326 0.083 0.001 0.007 0.008 0.047 0.003 0.002 0.030 0.026 0.081 0.002 0.070 0.040 55 G 0.020 0.008 0.030 0.034 0.004 0.524 0.007 0.003 0.014 0.064 0.019 0.100 0.152 0.002 0.002 0.017 56 P 0.014 0.017 0.014 0.006 0.001 0.045 0.001 0.004 0.001 0.001 0.724 0.021 0.150 0.001 0.001 0.001 57 Q 0.001 0.019 0.005 0.014 0.001 0.008 0.001 0.001 0.001 0.001 0.028 0.842 0.079 0.001 0.001 0.001 58 Q 0.004 0.003 0.018 0.022 0.001 0.010 0.001 0.001 0.001 0.001 0.017 0.068 0.849 0.001 0.001 0.004 59 I 0.001 0.001 0.006 0.003 0.001 0.017 0.001 0.001 0.001 0.001 0.026 0.017 0.927 0.001 0.001 0.001 60 H 0.001 0.002 0.001 0.002 0.001 0.007 0.001 0.001 0.001 0.001 0.012 0.038 0.936 0.001 0.001 0.001 61 L 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.019 0.971 0.001 0.001 0.001 62 K 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.008 0.984 0.001 0.001 0.003 63 A 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.004 0.004 0.990 0.001 0.001 0.001 64 K 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.009 0.986 0.001 0.001 0.001 65 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 0.997 0.001 0.001 0.001 66 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 0.996 0.001 0.001 0.001 67 Y 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.996 0.001 0.001 0.001 68 E 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.992 0.002 0.001 0.001 69 K 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.982 0.002 0.004 0.004 70 F 0.001 0.001 0.009 0.001 0.001 0.001 0.013 0.001 0.001 0.001 0.001 0.002 0.838 0.036 0.007 0.090 71 I 0.003 0.007 0.070 0.006 0.001 0.001 0.016 0.001 0.001 0.001 0.001 0.003 0.833 0.005 0.029 0.027 72 Q 0.006 0.004 0.056 0.008 0.009 0.041 0.137 0.001 0.001 0.002 0.004 0.003 0.451 0.189 0.008 0.081 73 T 0.020 0.036 0.035 0.014 0.003 0.042 0.024 0.059 0.001 0.001 0.223 0.009 0.309 0.016 0.188 0.020 74 D 0.009 0.300 0.060 0.028 0.001 0.004 0.007 0.003 0.053 0.005 0.017 0.061 0.053 0.011 0.014 0.375 75 A 0.349 0.012 0.183 0.049 0.003 0.085 0.060 0.002 0.004 0.003 0.009 0.042 0.159 0.005 0.014 0.022 76 P 0.017 0.171 0.542 0.032 0.001 0.069 0.015 0.005 0.001 0.001 0.038 0.010 0.069 0.002 0.006 0.021 77 K 0.026 0.150 0.066 0.536 0.002 0.024 0.005 0.005 0.010 0.002 0.053 0.063 0.032 0.003 0.005 0.017 78 E 0.042 0.035 0.430 0.394 0.004 0.010 0.019 0.001 0.007 0.001 0.002 0.009 0.019 0.005 0.002 0.022 79 V 0.011 0.010 0.327 0.622 0.001 0.005 0.005 0.001 0.001 0.001 0.002 0.001 0.006 0.001 0.002 0.005 80 N 0.008 0.016 0.092 0.680 0.012 0.165 0.002 0.001 0.002 0.003 0.002 0.002 0.005 0.001 0.001 0.010 81 L 0.012 0.077 0.027 0.801 0.006 0.034 0.001 0.004 0.001 0.001 0.031 0.002 0.004 0.001 0.001 0.001 82 D 0.001 0.007 0.002 0.014 0.004 0.942 0.001 0.001 0.001 0.002 0.003 0.021 0.002 0.001 0.001 0.001 83 F 0.001 0.006 0.001 0.002 0.001 0.007 0.001 0.002 0.001 0.001 0.972 0.002 0.007 0.001 0.001 0.001 84 H 0.001 0.011 0.001 0.003 0.001 0.003 0.001 0.001 0.001 0.001 0.007 0.963 0.009 0.001 0.001 0.001 85 T 0.002 0.001 0.012 0.003 0.001 0.026 0.002 0.001 0.001 0.001 0.030 0.049 0.870 0.001 0.002 0.001 86 K 0.001 0.003 0.004 0.002 0.001 0.010 0.001 0.001 0.001 0.001 0.064 0.035 0.879 0.001 0.001 0.001 87 E 0.001 0.002 0.001 0.004 0.001 0.002 0.001 0.001 0.001 0.001 0.006 0.064 0.921 0.001 0.001 0.001 88 V 0.001 0.001 0.001 0.003 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.008 0.976 0.002 0.001 0.005 89 I 0.001 0.001 0.003 0.002 0.001 0.002 0.003 0.001 0.001 0.001 0.002 0.002 0.980 0.002 0.002 0.001 90 T 0.001 0.002 0.004 0.003 0.001 0.003 0.006 0.001 0.001 0.001 0.003 0.004 0.950 0.013 0.005 0.006 91 N 0.003 0.004 0.007 0.011 0.001 0.003 0.007 0.002 0.001 0.001 0.005 0.006 0.849 0.025 0.037 0.041 92 S 0.009 0.007 0.040 0.007 0.001 0.007 0.035 0.001 0.002 0.001 0.006 0.008 0.656 0.064 0.030 0.128 93 I 0.022 0.021 0.111 0.016 0.003 0.021 0.104 0.003 0.001 0.001 0.021 0.012 0.524 0.042 0.041 0.056 94 T 0.029 0.187 0.239 0.095 0.001 0.007 0.025 0.012 0.007 0.002 0.011 0.028 0.151 0.015 0.051 0.141 95 Q 0.091 0.028 0.272 0.206 0.005 0.057 0.029 0.002 0.016 0.008 0.008 0.009 0.121 0.006 0.009 0.132 96 P 0.054 0.084 0.498 0.232 0.003 0.022 0.009 0.004 0.001 0.002 0.030 0.007 0.038 0.001 0.003 0.011 97 T 0.003 0.012 0.009 0.032 0.005 0.845 0.002 0.003 0.001 0.003 0.012 0.041 0.030 0.001 0.001 0.001 98 L 0.001 0.012 0.003 0.008 0.001 0.033 0.001 0.003 0.001 0.001 0.855 0.020 0.059 0.001 0.001 0.001 99 H 0.001 0.016 0.002 0.006 0.001 0.010 0.001 0.001 0.001 0.001 0.016 0.887 0.057 0.001 0.001 0.001 100 S 0.003 0.001 0.008 0.004 0.001 0.008 0.001 0.001 0.001 0.001 0.058 0.041 0.863 0.001 0.001 0.009 101 F 0.001 0.001 0.005 0.001 0.001 0.009 0.001 0.001 0.001 0.001 0.032 0.082 0.867 0.001 0.001 0.001 102 D 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.012 0.024 0.960 0.001 0.001 0.001 103 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.020 0.976 0.001 0.001 0.001 104 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.006 0.993 0.001 0.001 0.001 105 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 0.997 0.001 0.001 0.001 106 S 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 0.001 107 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 0.997 0.001 0.001 0.001 108 V 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 0.001 109 Y 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 0.001 110 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 0.996 0.001 0.001 0.001 111 L 0.001 0.001 0.003 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.960 0.007 0.004 0.018 112 M 0.001 0.002 0.022 0.006 0.001 0.002 0.016 0.001 0.001 0.001 0.001 0.002 0.882 0.017 0.016 0.032 113 E 0.004 0.004 0.024 0.005 0.003 0.020 0.032 0.002 0.001 0.001 0.005 0.003 0.771 0.072 0.018 0.037 114 Q 0.007 0.020 0.015 0.006 0.001 0.023 0.017 0.012 0.001 0.002 0.104 0.016 0.629 0.044 0.062 0.039 115 D 0.010 0.027 0.019 0.005 0.001 0.019 0.010 0.004 0.005 0.004 0.081 0.170 0.562 0.005 0.032 0.047 116 S 0.032 0.031 0.050 0.011 0.001 0.012 0.004 0.001 0.003 0.001 0.056 0.128 0.602 0.001 0.006 0.062 117 Y 0.015 0.010 0.088 0.014 0.001 0.038 0.005 0.001 0.001 0.001 0.029 0.128 0.662 0.001 0.002 0.007 118 T 0.001 0.003 0.011 0.004 0.001 0.071 0.003 0.001 0.001 0.001 0.060 0.043 0.800 0.001 0.001 0.001 119 R 0.001 0.025 0.001 0.008 0.001 0.011 0.001 0.001 0.001 0.001 0.078 0.099 0.774 0.001 0.001 0.001 120 F 0.001 0.006 0.003 0.007 0.001 0.004 0.010 0.001 0.001 0.001 0.003 0.149 0.801 0.003 0.002 0.010 121 L 0.001 0.003 0.041 0.005 0.001 0.003 0.009 0.001 0.001 0.001 0.003 0.005 0.912 0.001 0.006 0.012 122 K 0.003 0.011 0.048 0.020 0.001 0.009 0.006 0.002 0.001 0.001 0.006 0.008 0.823 0.011 0.007 0.045 123 S 0.002 0.001 0.004 0.002 0.001 0.115 0.002 0.001 0.001 0.001 0.018 0.011 0.836 0.001 0.004 0.002 124 D 0.001 0.005 0.002 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.431 0.024 0.529 0.001 0.001 0.003 125 I 0.001 0.002 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.007 0.501 0.484 0.001 0.001 0.001 126 Y 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.005 0.985 0.001 0.001 0.001 127 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.006 0.985 0.001 0.001 0.001 128 D 0.001 0.001 0.001 0.002 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.005 0.982 0.001 0.001 0.002 129 L 0.001 0.003 0.004 0.005 0.001 0.002 0.008 0.001 0.001 0.001 0.003 0.005 0.911 0.017 0.005 0.035 130 M 0.002 0.002 0.023 0.004 0.008 0.003 0.119 0.001 0.001 0.001 0.003 0.004 0.475 0.322 0.013 0.021 131 E 0.003 0.012 0.055 0.008 0.004 0.005 0.049 0.032 0.001 0.001 0.005 0.003 0.342 0.066 0.364 0.051 132 G 0.012 0.024 0.037 0.018 0.005 0.010 0.047 0.011 0.031 0.028 0.020 0.007 0.220 0.052 0.052 0.427