# TARGET T0367 # 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/T0367/T0367.t04-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 60 # 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 0.109 0.035 0.107 0.090 0.004 0.172 0.006 0.008 0.009 0.022 0.123 0.074 0.220 0.001 0.003 0.016 2 D 0.014 0.039 0.016 0.023 0.001 0.248 0.001 0.002 0.001 0.003 0.127 0.362 0.160 0.001 0.001 0.002 3 E 0.002 0.006 0.006 0.015 0.001 0.025 0.001 0.001 0.001 0.001 0.490 0.160 0.291 0.001 0.001 0.001 4 L 0.001 0.001 0.002 0.002 0.001 0.009 0.001 0.001 0.001 0.001 0.032 0.297 0.656 0.001 0.001 0.001 5 E 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.007 0.023 0.966 0.001 0.001 0.001 6 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.009 0.987 0.001 0.001 0.001 7 R 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.994 0.001 0.001 0.001 8 I 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.003 0.994 0.001 0.001 0.001 9 R 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.994 0.001 0.001 0.001 10 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 0.996 0.001 0.001 0.002 11 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 0.998 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 0.002 0.001 0.995 0.001 0.001 0.001 13 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 0.002 0.001 14 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 0.990 0.002 0.001 0.005 15 V 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.994 0.001 0.001 0.001 16 Q 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.007 0.987 0.001 0.001 0.001 17 D 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.981 0.005 0.002 0.008 18 A 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.989 0.001 0.002 0.001 19 K 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.002 0.004 0.978 0.006 0.001 0.003 20 K 0.001 0.001 0.002 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.003 0.006 0.955 0.010 0.011 0.006 21 E 0.001 0.002 0.008 0.001 0.001 0.001 0.010 0.001 0.001 0.001 0.003 0.004 0.913 0.008 0.011 0.037 22 F 0.003 0.001 0.013 0.001 0.001 0.004 0.005 0.001 0.001 0.001 0.007 0.007 0.938 0.002 0.006 0.011 23 E 0.003 0.005 0.008 0.001 0.009 0.004 0.055 0.001 0.001 0.001 0.011 0.009 0.271 0.607 0.002 0.014 24 M 0.002 0.006 0.010 0.003 0.001 0.003 0.004 0.027 0.001 0.001 0.009 0.013 0.316 0.002 0.600 0.005 25 G 0.002 0.003 0.020 0.003 0.001 0.010 0.003 0.001 0.016 0.023 0.021 0.018 0.629 0.001 0.002 0.249 26 L 0.151 0.005 0.007 0.005 0.001 0.009 0.001 0.001 0.001 0.001 0.049 0.108 0.660 0.001 0.001 0.003 27 Y 0.001 0.002 0.008 0.002 0.001 0.028 0.001 0.001 0.001 0.001 0.037 0.120 0.801 0.001 0.001 0.001 28 E 0.001 0.001 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.021 0.039 0.932 0.001 0.001 0.001 29 R 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.041 0.953 0.001 0.001 0.001 30 C 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.011 0.987 0.001 0.001 0.001 31 C 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 32 S 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.995 0.001 0.001 0.001 33 T 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 34 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.997 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 0.001 0.999 0.001 0.001 0.001 36 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 0.999 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 0.001 0.999 0.001 0.001 0.001 38 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 39 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 0.999 0.001 0.001 0.001 40 H 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 41 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 0.999 0.001 0.001 0.001 42 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 0.999 0.001 0.001 0.001 43 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 0.999 0.001 0.001 0.001 44 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 0.999 0.001 0.001 0.001 45 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 0.994 0.001 0.001 0.004 46 L 0.001 0.001 0.002 0.001 0.001 0.001 0.009 0.001 0.001 0.001 0.001 0.001 0.920 0.058 0.003 0.006 47 L 0.001 0.001 0.012 0.003 0.001 0.001 0.009 0.001 0.001 0.001 0.001 0.001 0.838 0.021 0.086 0.024 48 G 0.001 0.001 0.001 0.001 0.010 0.001 0.103 0.001 0.001 0.001 0.001 0.001 0.033 0.814 0.003 0.032 49 Y 0.009 0.007 0.012 0.002 0.001 0.001 0.005 0.054 0.001 0.001 0.002 0.002 0.026 0.002 0.870 0.008 50 G 0.006 0.011 0.033 0.007 0.001 0.007 0.008 0.001 0.102 0.081 0.003 0.005 0.028 0.002 0.002 0.705 51 R 0.877 0.022 0.041 0.029 0.001 0.002 0.002 0.001 0.001 0.001 0.006 0.005 0.007 0.001 0.002 0.003 52 D 0.008 0.032 0.220 0.072 0.005 0.556 0.006 0.005 0.002 0.006 0.009 0.045 0.026 0.001 0.002 0.004 53 S 0.006 0.058 0.026 0.076 0.008 0.193 0.003 0.008 0.003 0.002 0.529 0.027 0.055 0.001 0.002 0.003 54 K 0.007 0.128 0.021 0.082 0.017 0.024 0.011 0.005 0.012 0.002 0.096 0.528 0.051 0.008 0.002 0.006 55 T 0.014 0.044 0.161 0.081 0.008 0.062 0.017 0.021 0.005 0.004 0.021 0.155 0.331 0.003 0.052 0.019 56 H 0.009 0.012 0.088 0.019 0.042 0.105 0.097 0.007 0.009 0.016 0.104 0.030 0.351 0.041 0.004 0.066 57 R 0.044 0.087 0.045 0.050 0.001 0.022 0.002 0.076 0.004 0.002 0.144 0.165 0.297 0.001 0.055 0.007 58 G 0.012 0.009 0.040 0.063 0.001 0.039 0.001 0.002 0.037 0.030 0.081 0.159 0.474 0.001 0.001 0.052 59 T 0.029 0.009 0.021 0.035 0.001 0.020 0.001 0.001 0.001 0.001 0.064 0.085 0.734 0.001 0.001 0.001 60 I 0.001 0.004 0.013 0.036 0.001 0.027 0.001 0.001 0.001 0.001 0.033 0.056 0.829 0.001 0.001 0.001 61 Y 0.001 0.008 0.001 0.039 0.001 0.011 0.001 0.001 0.001 0.001 0.004 0.023 0.913 0.001 0.001 0.001 62 L 0.001 0.003 0.001 0.024 0.001 0.023 0.002 0.001 0.001 0.001 0.002 0.013 0.927 0.001 0.001 0.002 63 I 0.001 0.004 0.006 0.017 0.001 0.008 0.004 0.001 0.001 0.001 0.007 0.007 0.934 0.003 0.007 0.002 64 W 0.001 0.003 0.003 0.008 0.001 0.007 0.002 0.001 0.001 0.001 0.010 0.007 0.942 0.004 0.004 0.009 65 E 0.010 0.009 0.010 0.017 0.003 0.005 0.025 0.002 0.002 0.001 0.012 0.011 0.567 0.256 0.008 0.062 66 C 0.005 0.016 0.081 0.017 0.001 0.011 0.017 0.007 0.001 0.001 0.004 0.014 0.566 0.008 0.231 0.021 67 R 0.005 0.014 0.083 0.024 0.002 0.020 0.024 0.001 0.004 0.003 0.018 0.007 0.594 0.009 0.007 0.187 68 E 0.131 0.030 0.050 0.081 0.005 0.034 0.010 0.005 0.001 0.001 0.061 0.061 0.503 0.005 0.007 0.015 69 E 0.003 0.012 0.021 0.010 0.065 0.014 0.096 0.002 0.001 0.001 0.009 0.010 0.038 0.706 0.002 0.010 70 L 0.003 0.023 0.037 0.034 0.001 0.004 0.008 0.094 0.001 0.001 0.006 0.007 0.040 0.001 0.737 0.004 71 G 0.006 0.014 0.052 0.041 0.002 0.035 0.011 0.003 0.116 0.166 0.012 0.014 0.080 0.002 0.003 0.443 72 L 0.764 0.026 0.038 0.063 0.002 0.011 0.004 0.003 0.001 0.001 0.028 0.018 0.032 0.001 0.002 0.006 73 S 0.009 0.037 0.146 0.053 0.007 0.432 0.006 0.011 0.002 0.007 0.038 0.130 0.107 0.004 0.006 0.005 74 D 0.003 0.014 0.012 0.018 0.003 0.219 0.003 0.007 0.001 0.003 0.459 0.047 0.202 0.002 0.004 0.002 75 D 0.003 0.041 0.004 0.019 0.001 0.015 0.001 0.006 0.003 0.001 0.243 0.451 0.207 0.001 0.002 0.003 76 D 0.004 0.009 0.011 0.008 0.001 0.016 0.005 0.001 0.002 0.001 0.015 0.285 0.619 0.005 0.003 0.015 77 C 0.002 0.001 0.031 0.004 0.001 0.009 0.010 0.001 0.001 0.001 0.016 0.016 0.897 0.002 0.006 0.004 78 S 0.001 0.008 0.010 0.006 0.001 0.007 0.003 0.001 0.001 0.001 0.017 0.030 0.908 0.001 0.003 0.006 79 K 0.007 0.007 0.008 0.023 0.001 0.010 0.005 0.001 0.002 0.001 0.013 0.027 0.829 0.019 0.002 0.047 80 L 0.003 0.004 0.052 0.010 0.001 0.011 0.015 0.001 0.001 0.001 0.010 0.015 0.855 0.006 0.012 0.005 81 S 0.001 0.012 0.027 0.010 0.001 0.020 0.008 0.002 0.001 0.001 0.012 0.018 0.864 0.003 0.008 0.013 82 R 0.007 0.009 0.010 0.031 0.001 0.016 0.004 0.002 0.002 0.001 0.073 0.023 0.780 0.011 0.005 0.024 83 A 0.009 0.033 0.074 0.026 0.003 0.011 0.035 0.001 0.001 0.001 0.015 0.059 0.653 0.036 0.016 0.028 84 F 0.006 0.014 0.109 0.046 0.003 0.028 0.040 0.006 0.001 0.001 0.011 0.018 0.624 0.016 0.048 0.030 85 D 0.011 0.034 0.068 0.055 0.004 0.089 0.022 0.011 0.006 0.005 0.041 0.023 0.529 0.015 0.021 0.067 86 L 0.043 0.073 0.061 0.074 0.004 0.045 0.019 0.007 0.008 0.003 0.147 0.052 0.373 0.016 0.015 0.058 87 R 0.035 0.092 0.252 0.126 0.004 0.025 0.023 0.011 0.005 0.003 0.027 0.107 0.213 0.016 0.021 0.041 88 E 0.011 0.016 0.084 0.048 0.005 0.349 0.016 0.007 0.002 0.004 0.027 0.036 0.357 0.006 0.015 0.017 89 E 0.008 0.058 0.043 0.041 0.007 0.048 0.016 0.010 0.003 0.002 0.410 0.034 0.281 0.013 0.007 0.020 90 S 0.012 0.041 0.023 0.038 0.004 0.047 0.009 0.012 0.005 0.002 0.050 0.453 0.270 0.006 0.019 0.008 91 D 0.011 0.024 0.071 0.020 0.017 0.025 0.094 0.007 0.008 0.003 0.056 0.028 0.307 0.215 0.017 0.095 92 Y 0.018 0.050 0.184 0.056 0.002 0.012 0.019 0.030 0.003 0.001 0.021 0.041 0.206 0.004 0.325 0.027 93 G 0.022 0.016 0.135 0.034 0.014 0.084 0.078 0.003 0.025 0.039 0.020 0.023 0.211 0.035 0.006 0.256 94 I 0.232 0.109 0.097 0.104 0.004 0.036 0.023 0.031 0.003 0.001 0.108 0.041 0.147 0.010 0.036 0.017 95 Y 0.013 0.154 0.267 0.157 0.003 0.061 0.021 0.005 0.033 0.008 0.014 0.078 0.080 0.008 0.014 0.083 96 K 0.123 0.046 0.301 0.267 0.003 0.032 0.026 0.005 0.003 0.003 0.037 0.024 0.084 0.002 0.011 0.033 97 E 0.041 0.075 0.311 0.242 0.007 0.164 0.008 0.003 0.006 0.003 0.024 0.025 0.055 0.002 0.002 0.031 98 V 0.022 0.182 0.173 0.491 0.002 0.019 0.004 0.006 0.001 0.003 0.035 0.022 0.030 0.001 0.002 0.008 99 S 0.001 0.001 0.001 0.002 0.001 0.958 0.001 0.001 0.001 0.001 0.002 0.016 0.017 0.001 0.001 0.001 100 K 0.001 0.001 0.001 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.975 0.002 0.017 0.001 0.001 0.001 101 D 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.985 0.010 0.001 0.001 0.001 102 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.008 0.988 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 0.004 0.992 0.001 0.001 0.001 104 I 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.008 0.991 0.001 0.001 0.001 105 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 0.001 106 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 0.998 0.001 0.001 0.001 107 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 0.997 0.001 0.001 0.001 108 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 0.996 0.001 0.001 0.001 109 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 0.993 0.001 0.001 0.005 110 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 0.998 0.001 0.001 0.001 111 E 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 0.001 112 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 0.997 0.001 0.001 0.001 113 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 0.999 0.001 0.001 0.001 114 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 0.999 0.001 0.001 0.001 115 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 0.999 0.001 0.001 0.001 116 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 0.996 0.001 0.001 0.003 117 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 0.998 0.001 0.001 0.001 118 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 0.001 119 N 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.994 0.001 0.001 0.002 120 A 0.001 0.001 0.005 0.001 0.001 0.001 0.009 0.001 0.001 0.001 0.001 0.001 0.834 0.092 0.004 0.053 121 V 0.001 0.003 0.029 0.003 0.001 0.001 0.029 0.001 0.001 0.001 0.001 0.003 0.841 0.023 0.049 0.016 122 N 0.002 0.004 0.046 0.005 0.004 0.009 0.090 0.002 0.001 0.001 0.002 0.002 0.559 0.111 0.019 0.143 123 K 0.041 0.055 0.093 0.032 0.006 0.009 0.061 0.025 0.004 0.002 0.038 0.007 0.318 0.075 0.119 0.116 124 N 0.019 0.035 0.128 0.020 0.035 0.098 0.183 0.009 0.010 0.014 0.029 0.055 0.205 0.056 0.042 0.061 125 R 0.063 0.120 0.082 0.037 0.018 0.036 0.053 0.068 0.008 0.005 0.197 0.042 0.129 0.035 0.067 0.040