# TARGET T0300 # 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/T0300/T0300.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 8.03554 # 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 0.034 0.043 0.093 0.128 0.007 0.039 0.029 0.004 0.015 0.005 0.030 0.057 0.369 0.020 0.010 0.117 2 A 0.051 0.038 0.271 0.165 0.011 0.026 0.081 0.010 0.003 0.002 0.019 0.037 0.194 0.040 0.026 0.028 3 S 0.013 0.051 0.215 0.113 0.007 0.236 0.033 0.015 0.007 0.005 0.016 0.021 0.173 0.006 0.039 0.049 4 K 0.035 0.188 0.141 0.272 0.003 0.013 0.010 0.006 0.011 0.005 0.117 0.022 0.079 0.007 0.008 0.084 5 K 0.066 0.039 0.113 0.094 0.023 0.380 0.057 0.002 0.005 0.004 0.009 0.118 0.061 0.013 0.004 0.012 6 P 0.011 0.186 0.217 0.075 0.003 0.042 0.020 0.032 0.001 0.001 0.296 0.016 0.059 0.004 0.023 0.014 7 D 0.010 0.191 0.039 0.065 0.002 0.334 0.005 0.004 0.036 0.008 0.018 0.190 0.044 0.001 0.010 0.044 8 K 0.075 0.215 0.360 0.127 0.001 0.003 0.001 0.004 0.002 0.003 0.098 0.024 0.061 0.001 0.003 0.023 9 T 0.001 0.001 0.001 0.001 0.001 0.979 0.001 0.001 0.001 0.001 0.001 0.014 0.006 0.001 0.001 0.001 10 Y 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.988 0.001 0.010 0.001 0.001 0.001 11 E 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.994 0.006 0.001 0.001 0.001 12 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 0.999 0.001 0.001 0.001 13 M 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 14 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 15 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 0.998 0.001 0.001 0.001 16 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 0.991 0.001 0.001 0.007 17 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 0.995 0.001 0.001 0.001 18 E 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.989 0.001 0.001 0.001 19 R 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.003 0.964 0.004 0.001 0.023 20 L 0.001 0.001 0.023 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.966 0.001 0.002 0.001 21 K 0.001 0.002 0.003 0.003 0.001 0.002 0.001 0.001 0.001 0.001 0.003 0.002 0.981 0.001 0.001 0.002 22 L 0.001 0.003 0.001 0.008 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.013 0.966 0.001 0.001 0.001 23 E 0.001 0.007 0.003 0.010 0.001 0.019 0.002 0.001 0.001 0.001 0.003 0.014 0.925 0.008 0.001 0.007 24 N 0.001 0.001 0.001 0.001 0.001 0.058 0.001 0.001 0.001 0.001 0.011 0.008 0.908 0.001 0.009 0.001 25 K 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.097 0.013 0.884 0.001 0.001 0.002 26 T 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.098 0.893 0.002 0.001 0.002 27 L 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.992 0.001 0.001 0.001 28 K 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.991 0.001 0.001 0.001 29 Q 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.990 0.001 0.001 0.002 30 K 0.001 0.001 0.006 0.001 0.001 0.001 0.006 0.001 0.001 0.001 0.002 0.002 0.897 0.042 0.005 0.036 31 V 0.001 0.002 0.038 0.004 0.001 0.002 0.036 0.001 0.001 0.001 0.002 0.003 0.846 0.016 0.028 0.022 32 K 0.004 0.015 0.105 0.014 0.003 0.008 0.045 0.002 0.001 0.001 0.004 0.003 0.638 0.041 0.016 0.101 33 S 0.021 0.016 0.043 0.022 0.029 0.029 0.174 0.008 0.002 0.003 0.023 0.007 0.224 0.325 0.027 0.047 34 S 0.011 0.141 0.134 0.028 0.004 0.023 0.054 0.043 0.004 0.002 0.044 0.019 0.138 0.020 0.297 0.038 35 G 0.047 0.073 0.107 0.114 0.003 0.028 0.023 0.014 0.077 0.031 0.043 0.071 0.113 0.011 0.033 0.213 36 A 0.356 0.058 0.176 0.101 0.009 0.043 0.037 0.004 0.012 0.005 0.030 0.043 0.062 0.009 0.008 0.049 37 V 0.041 0.097 0.434 0.281 0.006 0.021 0.014 0.011 0.003 0.002 0.018 0.018 0.021 0.003 0.011 0.019 38 S 0.013 0.028 0.096 0.160 0.034 0.537 0.020 0.009 0.006 0.014 0.013 0.026 0.028 0.002 0.005 0.009 39 S 0.015 0.176 0.040 0.089 0.013 0.084 0.010 0.032 0.005 0.006 0.462 0.018 0.033 0.005 0.004 0.007 40 D 0.013 0.088 0.023 0.065 0.003 0.201 0.006 0.018 0.026 0.008 0.062 0.429 0.030 0.004 0.019 0.007 41 D 0.041 0.251 0.231 0.081 0.001 0.024 0.014 0.003 0.024 0.003 0.053 0.077 0.085 0.004 0.020 0.088 42 S 0.119 0.047 0.334 0.188 0.002 0.032 0.016 0.002 0.006 0.002 0.022 0.091 0.071 0.003 0.008 0.057 43 I 0.024 0.034 0.685 0.121 0.004 0.037 0.010 0.002 0.001 0.001 0.010 0.005 0.038 0.002 0.002 0.026 44 L 0.008 0.130 0.184 0.630 0.002 0.011 0.002 0.003 0.001 0.001 0.003 0.005 0.012 0.001 0.002 0.006 45 T 0.001 0.002 0.007 0.024 0.003 0.939 0.001 0.001 0.001 0.003 0.002 0.004 0.012 0.001 0.001 0.001 46 A 0.001 0.008 0.002 0.003 0.001 0.020 0.001 0.003 0.001 0.001 0.948 0.003 0.011 0.001 0.001 0.001 47 A 0.001 0.035 0.001 0.007 0.001 0.004 0.001 0.001 0.002 0.001 0.010 0.926 0.010 0.001 0.001 0.001 48 K 0.004 0.013 0.068 0.022 0.001 0.018 0.016 0.003 0.002 0.001 0.016 0.048 0.719 0.003 0.037 0.028 49 R 0.008 0.018 0.115 0.022 0.001 0.034 0.009 0.003 0.003 0.001 0.065 0.026 0.625 0.003 0.006 0.061 50 E 0.050 0.072 0.107 0.089 0.001 0.023 0.006 0.003 0.003 0.001 0.028 0.088 0.500 0.003 0.007 0.019 51 S 0.015 0.016 0.176 0.199 0.001 0.020 0.003 0.001 0.002 0.001 0.025 0.020 0.492 0.001 0.004 0.024 52 I 0.006 0.017 0.126 0.206 0.003 0.052 0.003 0.001 0.001 0.001 0.019 0.019 0.533 0.002 0.001 0.011 53 I 0.002 0.014 0.019 0.077 0.005 0.212 0.005 0.001 0.001 0.001 0.030 0.023 0.606 0.002 0.001 0.002 54 V 0.001 0.133 0.013 0.109 0.002 0.042 0.004 0.002 0.001 0.001 0.053 0.061 0.569 0.001 0.003 0.004 55 S 0.004 0.011 0.011 0.088 0.001 0.040 0.002 0.003 0.002 0.001 0.031 0.067 0.725 0.001 0.003 0.010 56 S 0.003 0.007 0.018 0.012 0.001 0.042 0.002 0.001 0.001 0.001 0.063 0.043 0.797 0.002 0.001 0.006 57 S 0.001 0.003 0.003 0.004 0.001 0.013 0.001 0.001 0.001 0.001 0.038 0.053 0.880 0.001 0.001 0.001 58 R 0.001 0.002 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.006 0.042 0.943 0.001 0.001 0.001 59 A 0.001 0.001 0.001 0.002 0.001 0.003 0.001 0.001 0.001 0.001 0.006 0.017 0.964 0.001 0.001 0.004 60 L 0.001 0.001 0.002 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.006 0.014 0.972 0.001 0.001 0.001 61 G 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.006 0.989 0.001 0.001 0.001 62 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.006 0.991 0.001 0.001 0.001 63 V 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.009 0.988 0.001 0.001 0.001 64 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 0.996 0.001 0.001 0.001 65 M 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.992 0.001 0.001 0.001 66 R 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.988 0.001 0.003 0.003 67 K 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.002 0.983 0.001 0.001 0.007 68 I 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.002 0.006 0.986 0.001 0.001 0.001 69 E 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.011 0.979 0.001 0.001 0.001 70 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.003 0.991 0.001 0.001 0.001 71 K 0.001 0.001 0.007 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.004 0.962 0.002 0.001 0.018 72 V 0.001 0.001 0.003 0.002 0.001 0.004 0.002 0.001 0.001 0.001 0.002 0.006 0.976 0.001 0.001 0.001 73 R 0.001 0.005 0.006 0.002 0.001 0.005 0.005 0.001 0.001 0.001 0.004 0.005 0.958 0.004 0.002 0.004 74 S 0.001 0.003 0.002 0.005 0.001 0.006 0.002 0.001 0.001 0.001 0.010 0.009 0.951 0.001 0.006 0.004 75 R 0.003 0.013 0.019 0.006 0.001 0.005 0.008 0.001 0.001 0.001 0.017 0.023 0.808 0.017 0.006 0.074 76 A 0.010 0.008 0.035 0.011 0.002 0.010 0.055 0.001 0.001 0.001 0.007 0.025 0.730 0.069 0.020 0.016 77 A 0.003 0.042 0.110 0.018 0.001 0.018 0.037 0.005 0.001 0.001 0.007 0.013 0.614 0.012 0.086 0.035 78 K 0.020 0.035 0.079 0.117 0.001 0.009 0.017 0.005 0.010 0.003 0.030 0.011 0.300 0.013 0.023 0.329 79 A 0.179 0.030 0.365 0.129 0.002 0.014 0.016 0.001 0.005 0.001 0.007 0.014 0.126 0.004 0.009 0.098 80 V 0.024 0.071 0.505 0.298 0.002 0.018 0.007 0.002 0.001 0.001 0.004 0.006 0.042 0.001 0.002 0.016 81 T 0.001 0.002 0.002 0.005 0.001 0.962 0.001 0.001 0.001 0.001 0.003 0.004 0.018 0.001 0.001 0.001 82 E 0.001 0.001 0.001 0.001 0.001 0.013 0.001 0.001 0.001 0.001 0.972 0.002 0.010 0.001 0.001 0.001 83 Q 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.012 0.969 0.015 0.001 0.001 0.001 84 E 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.003 0.035 0.954 0.001 0.001 0.003 85 L 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.007 0.005 0.985 0.001 0.001 0.001 86 T 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.021 0.974 0.001 0.001 0.001 87 S 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.995 0.001 0.001 0.001 88 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 0.991 0.002 0.001 0.003 89 L 0.001 0.001 0.002 0.001 0.001 0.001 0.016 0.001 0.001 0.001 0.001 0.001 0.940 0.033 0.003 0.003 90 Q 0.001 0.010 0.005 0.002 0.001 0.001 0.008 0.001 0.001 0.001 0.001 0.004 0.829 0.002 0.124 0.013 91 S 0.004 0.004 0.008 0.004 0.001 0.001 0.002 0.001 0.004 0.001 0.001 0.001 0.090 0.007 0.003 0.874 92 L 0.295 0.003 0.427 0.017 0.001 0.019 0.013 0.001 0.001 0.001 0.004 0.002 0.196 0.002 0.007 0.013 93 T 0.006 0.414 0.403 0.134 0.001 0.003 0.002 0.001 0.001 0.001 0.001 0.002 0.019 0.001 0.001 0.014 94 L 0.005 0.002 0.023 0.963 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 95 R 0.002 0.003 0.542 0.446 0.002 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 96 V 0.001 0.002 0.005 0.989 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 97 D 0.001 0.006 0.007 0.955 0.003 0.026 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 98 V 0.001 0.021 0.008 0.959 0.003 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 99 S 0.001 0.014 0.006 0.235 0.014 0.722 0.001 0.002 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.001 100 M 0.001 0.091 0.006 0.132 0.020 0.158 0.001 0.013 0.001 0.001 0.568 0.003 0.003 0.001 0.001 0.001 101 E 0.002 0.184 0.008 0.081 0.069 0.077 0.008 0.012 0.014 0.003 0.046 0.483 0.004 0.006 0.001 0.001 102 E 0.009 0.091 0.112 0.087 0.054 0.064 0.068 0.110 0.011 0.006 0.105 0.060 0.095 0.020 0.092 0.018