# TARGET T0360 # 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/T0360/T0360.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 35.1055 # 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 0.092 0.064 0.194 0.245 0.005 0.032 0.021 0.005 0.014 0.011 0.030 0.056 0.144 0.010 0.007 0.070 2 T 0.025 0.028 0.117 0.078 0.004 0.432 0.010 0.007 0.001 0.003 0.019 0.065 0.198 0.001 0.007 0.005 3 Q 0.003 0.031 0.024 0.032 0.003 0.123 0.002 0.005 0.002 0.002 0.518 0.029 0.214 0.003 0.001 0.008 4 E 0.008 0.089 0.017 0.057 0.001 0.012 0.003 0.002 0.003 0.001 0.042 0.563 0.190 0.003 0.004 0.004 5 T 0.002 0.004 0.025 0.017 0.001 0.039 0.003 0.001 0.001 0.001 0.016 0.045 0.831 0.001 0.005 0.007 6 A 0.002 0.005 0.022 0.009 0.005 0.042 0.014 0.002 0.001 0.001 0.132 0.030 0.713 0.014 0.001 0.009 7 L 0.002 0.017 0.006 0.011 0.001 0.014 0.001 0.010 0.001 0.001 0.035 0.191 0.692 0.001 0.017 0.002 8 G 0.001 0.001 0.003 0.004 0.001 0.009 0.001 0.001 0.002 0.001 0.021 0.021 0.922 0.002 0.001 0.010 9 A 0.001 0.001 0.001 0.002 0.001 0.002 0.001 0.001 0.001 0.001 0.018 0.018 0.952 0.001 0.001 0.001 10 A 0.001 0.004 0.006 0.004 0.001 0.004 0.006 0.001 0.001 0.001 0.004 0.046 0.896 0.011 0.003 0.014 11 L 0.001 0.002 0.016 0.005 0.001 0.006 0.012 0.001 0.001 0.001 0.004 0.007 0.911 0.008 0.019 0.009 12 K 0.002 0.009 0.036 0.007 0.001 0.007 0.010 0.002 0.001 0.001 0.010 0.007 0.836 0.015 0.017 0.042 13 S 0.015 0.011 0.027 0.017 0.001 0.022 0.008 0.002 0.002 0.001 0.024 0.022 0.771 0.014 0.022 0.042 14 A 0.013 0.018 0.054 0.010 0.001 0.020 0.021 0.001 0.001 0.001 0.043 0.031 0.712 0.021 0.011 0.043 15 V 0.008 0.040 0.093 0.024 0.002 0.020 0.026 0.002 0.001 0.001 0.034 0.054 0.643 0.011 0.016 0.026 16 Q 0.011 0.073 0.179 0.089 0.004 0.016 0.035 0.007 0.003 0.001 0.015 0.038 0.407 0.026 0.022 0.073 17 T 0.021 0.018 0.120 0.057 0.007 0.179 0.034 0.009 0.004 0.005 0.027 0.019 0.421 0.009 0.031 0.039 18 M 0.017 0.068 0.121 0.043 0.005 0.040 0.014 0.013 0.003 0.005 0.301 0.032 0.288 0.007 0.010 0.033 19 S 0.016 0.029 0.015 0.019 0.003 0.150 0.005 0.007 0.003 0.004 0.042 0.445 0.246 0.004 0.006 0.006 20 K 0.003 0.008 0.011 0.005 0.001 0.042 0.002 0.003 0.001 0.001 0.256 0.053 0.599 0.002 0.005 0.007 21 K 0.002 0.008 0.007 0.004 0.001 0.009 0.001 0.001 0.001 0.001 0.069 0.326 0.568 0.001 0.002 0.003 22 K 0.002 0.002 0.006 0.004 0.001 0.005 0.001 0.001 0.001 0.001 0.017 0.080 0.877 0.001 0.001 0.003 23 Q 0.001 0.001 0.004 0.002 0.001 0.006 0.001 0.001 0.001 0.001 0.009 0.018 0.958 0.001 0.001 0.001 24 T 0.001 0.001 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.007 0.010 0.977 0.001 0.001 0.001 25 E 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.011 0.983 0.001 0.001 0.001 26 M 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.005 0.988 0.001 0.001 0.001 27 I 0.001 0.001 0.002 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.978 0.006 0.003 0.002 28 A 0.001 0.002 0.004 0.002 0.001 0.002 0.009 0.001 0.001 0.001 0.004 0.003 0.911 0.031 0.019 0.012 29 D 0.004 0.005 0.016 0.007 0.001 0.002 0.015 0.002 0.002 0.001 0.004 0.004 0.661 0.061 0.086 0.129 30 H 0.024 0.011 0.093 0.009 0.001 0.005 0.024 0.001 0.003 0.001 0.005 0.005 0.477 0.021 0.046 0.277 31 I 0.046 0.012 0.121 0.010 0.024 0.025 0.290 0.002 0.001 0.001 0.017 0.008 0.211 0.172 0.008 0.051 32 Y 0.026 0.178 0.148 0.061 0.003 0.041 0.018 0.121 0.004 0.002 0.022 0.029 0.124 0.008 0.191 0.022 33 G 0.016 0.071 0.078 0.144 0.005 0.051 0.015 0.009 0.107 0.066 0.075 0.034 0.115 0.007 0.009 0.196 34 K 0.270 0.091 0.201 0.174 0.005 0.034 0.015 0.006 0.005 0.002 0.032 0.054 0.080 0.003 0.009 0.018 35 Y 0.021 0.037 0.342 0.273 0.009 0.106 0.012 0.010 0.004 0.006 0.037 0.039 0.082 0.003 0.006 0.013 36 D 0.017 0.097 0.090 0.228 0.037 0.266 0.016 0.014 0.006 0.006 0.052 0.056 0.095 0.006 0.004 0.010 37 V 0.015 0.089 0.043 0.216 0.019 0.125 0.013 0.039 0.009 0.005 0.219 0.053 0.121 0.011 0.011 0.012 38 F 0.016 0.114 0.129 0.161 0.010 0.066 0.023 0.019 0.019 0.009 0.051 0.184 0.138 0.008 0.031 0.022 39 K 0.054 0.062 0.135 0.170 0.006 0.056 0.021 0.017 0.016 0.011 0.066 0.049 0.226 0.008 0.018 0.085 40 R 0.071 0.088 0.290 0.273 0.003 0.032 0.011 0.007 0.014 0.003 0.028 0.028 0.089 0.004 0.009 0.048 41 F 0.047 0.052 0.364 0.379 0.003 0.039 0.011 0.002 0.004 0.003 0.007 0.016 0.052 0.001 0.003 0.017 42 K 0.014 0.075 0.173 0.531 0.004 0.124 0.003 0.003 0.002 0.002 0.014 0.011 0.038 0.001 0.001 0.005 43 P 0.006 0.033 0.045 0.444 0.013 0.285 0.004 0.004 0.002 0.001 0.088 0.015 0.055 0.001 0.001 0.002 44 L 0.004 0.312 0.060 0.359 0.004 0.046 0.002 0.009 0.002 0.001 0.045 0.086 0.063 0.001 0.003 0.003 45 A 0.012 0.031 0.076 0.447 0.082 0.040 0.036 0.007 0.007 0.003 0.041 0.024 0.070 0.095 0.003 0.026 46 L 0.022 0.024 0.349 0.266 0.004 0.022 0.003 0.067 0.002 0.001 0.015 0.008 0.088 0.001 0.120 0.008 47 G 0.012 0.034 0.085 0.314 0.010 0.095 0.007 0.003 0.026 0.145 0.025 0.017 0.080 0.003 0.001 0.143 48 I 0.085 0.013 0.005 0.056 0.004 0.595 0.001 0.011 0.001 0.001 0.058 0.066 0.102 0.001 0.001 0.001 49 D 0.001 0.009 0.003 0.003 0.001 0.219 0.001 0.005 0.001 0.002 0.554 0.057 0.143 0.001 0.001 0.001 50 Q 0.001 0.012 0.001 0.005 0.001 0.002 0.001 0.002 0.001 0.001 0.191 0.507 0.276 0.001 0.002 0.001 51 D 0.001 0.001 0.001 0.001 0.001 0.008 0.001 0.001 0.001 0.001 0.001 0.111 0.876 0.001 0.001 0.001 52 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.002 0.989 0.001 0.001 0.001 53 I 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.011 0.983 0.001 0.001 0.001 54 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 0.968 0.015 0.004 0.010 55 A 0.001 0.001 0.012 0.001 0.001 0.001 0.008 0.001 0.001 0.001 0.001 0.001 0.763 0.077 0.030 0.108 56 L 0.001 0.001 0.047 0.001 0.001 0.003 0.057 0.001 0.001 0.001 0.001 0.001 0.856 0.005 0.014 0.016 57 P 0.007 0.012 0.021 0.001 0.001 0.011 0.030 0.002 0.001 0.001 0.065 0.011 0.755 0.026 0.007 0.050 58 Q 0.030 0.302 0.026 0.012 0.001 0.007 0.010 0.001 0.009 0.001 0.017 0.056 0.249 0.029 0.041 0.212 59 Y 0.007 0.037 0.727 0.016 0.001 0.001 0.008 0.001 0.001 0.001 0.002 0.007 0.125 0.001 0.021 0.046 60 D 0.001 0.001 0.001 0.001 0.001 0.959 0.001 0.001 0.001 0.001 0.001 0.001 0.037 0.001 0.001 0.001 61 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.994 0.001 0.005 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 0.001 0.996 0.004 0.001 0.001 0.001 63 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 0.998 0.001 0.001 0.001 64 I 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 65 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.999 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 0.001 0.999 0.001 0.001 0.001 67 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 68 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 0.999 0.001 0.001 0.001 69 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 0.003 0.001 0.001 70 N 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.980 0.004 0.011 0.003 71 H 0.001 0.001 0.009 0.001 0.001 0.001 0.015 0.001 0.001 0.001 0.001 0.001 0.626 0.061 0.018 0.268 72 C 0.010 0.003 0.026 0.002 0.001 0.010 0.052 0.001 0.001 0.001 0.002 0.003 0.802 0.018 0.028 0.044 73 R 0.012 0.174 0.156 0.015 0.001 0.002 0.009 0.005 0.001 0.001 0.017 0.007 0.381 0.009 0.030 0.181 74 R 0.020 0.006 0.019 0.008 0.001 0.309 0.006 0.002 0.002 0.008 0.014 0.066 0.516 0.002 0.007 0.016 75 P 0.002 0.001 0.004 0.001 0.001 0.027 0.001 0.001 0.001 0.001 0.731 0.009 0.224 0.001 0.001 0.001 76 R 0.001 0.015 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.020 0.902 0.060 0.001 0.001 0.001 77 Y 0.001 0.001 0.002 0.002 0.001 0.002 0.001 0.001 0.001 0.001 0.004 0.051 0.935 0.001 0.001 0.002 78 L 0.001 0.001 0.003 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.003 0.006 0.983 0.001 0.001 0.001 79 K 0.001 0.003 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.009 0.982 0.001 0.001 0.001 80 A 0.001 0.001 0.001 0.007 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.006 0.979 0.001 0.001 0.003 81 L 0.001 0.001 0.014 0.004 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.964 0.002 0.003 0.005 82 A 0.001 0.001 0.004 0.002 0.017 0.002 0.068 0.001 0.001 0.001 0.001 0.001 0.130 0.761 0.002 0.009 83 R 0.002 0.003 0.005 0.004 0.001 0.003 0.014 0.059 0.001 0.001 0.005 0.001 0.091 0.017 0.789 0.006 84 G 0.002 0.020 0.013 0.004 0.001 0.001 0.004 0.002 0.065 0.012 0.002 0.002 0.038 0.004 0.019 0.812 85 G 0.918 0.003 0.023 0.015 0.001 0.001 0.004 0.001 0.003 0.001 0.001 0.003 0.010 0.001 0.002 0.016 86 K 0.040 0.018 0.852 0.064 0.001 0.005 0.003 0.001 0.001 0.001 0.001 0.002 0.007 0.001 0.001 0.007 87 R 0.010 0.013 0.088 0.848 0.007 0.016 0.003 0.001 0.001 0.001 0.003 0.001 0.003 0.001 0.001 0.005 88 F 0.002 0.012 0.032 0.928 0.007 0.011 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 89 D 0.001 0.003 0.001 0.018 0.025 0.944 0.001 0.001 0.001 0.002 0.002 0.001 0.002 0.001 0.001 0.001 90 L 0.001 0.025 0.001 0.006 0.159 0.003 0.022 0.006 0.001 0.001 0.740 0.003 0.001 0.033 0.001 0.001 91 N 0.001 0.021 0.003 0.006 0.001 0.004 0.001 0.162 0.008 0.001 0.001 0.086 0.001 0.001 0.706 0.001 92 N 0.002 0.002 0.016 0.002 0.001 0.001 0.001 0.001 0.116 0.030 0.003 0.001 0.004 0.001 0.002 0.820 93 R 0.928 0.014 0.022 0.010 0.001 0.004 0.002 0.001 0.001 0.001 0.002 0.007 0.003 0.001 0.001 0.005 94 F 0.017 0.005 0.192 0.009 0.161 0.302 0.199 0.003 0.001 0.001 0.024 0.008 0.012 0.062 0.001 0.002 95 K 0.002 0.696 0.026 0.044 0.001 0.004 0.002 0.125 0.003 0.001 0.006 0.015 0.004 0.001 0.069 0.002 96 G 0.007 0.009 0.034 0.460 0.001 0.013 0.001 0.005 0.214 0.064 0.032 0.017 0.014 0.001 0.003 0.125 97 E 0.384 0.017 0.488 0.078 0.001 0.004 0.002 0.001 0.001 0.001 0.002 0.002 0.006 0.001 0.001 0.015 98 V 0.007 0.025 0.391 0.566 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 99 T 0.001 0.001 0.001 0.001 0.001 0.997 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 100 P 0.001 0.001 0.001 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.993 0.001 0.001 0.001 0.001 0.001 101 E 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 0.001 102 E 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.012 0.984 0.001 0.001 0.001 103 Q 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.005 0.991 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 0.004 0.995 0.001 0.001 0.001 105 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 0.997 0.001 0.001 0.001 106 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 0.002 0.001 0.001 107 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 0.960 0.017 0.007 0.011 108 N 0.001 0.001 0.006 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.884 0.013 0.025 0.066 109 H 0.001 0.001 0.014 0.001 0.001 0.004 0.007 0.001 0.001 0.001 0.001 0.001 0.955 0.003 0.003 0.011 110 P 0.001 0.002 0.002 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.051 0.006 0.928 0.001 0.001 0.002 111 F 0.001 0.008 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.013 0.197 0.771 0.001 0.001 0.002 112 V 0.001 0.001 0.002 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.005 0.013 0.970 0.002 0.002 0.002 113 Q 0.001 0.001 0.005 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.005 0.008 0.972 0.001 0.003 0.001 114 Q 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.005 0.009 0.980 0.001 0.001 0.002 115 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.007 0.009 0.979 0.001 0.001 0.001 116 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.008 0.983 0.001 0.001 0.001 117 Q 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.006 0.990 0.001 0.001 0.001 118 Q 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.002 0.993 0.001 0.001 0.001 119 Q 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.003 0.991 0.001 0.001 0.001 120 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 0.990 0.001 0.001 0.001 121 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.002 0.994 0.001 0.001 0.001 122 Q 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.003 0.993 0.001 0.001 0.001 123 A 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 0.001 124 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 0.991 0.004 0.001 0.001 125 A 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.991 0.001 0.003 0.001 126 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 0.971 0.007 0.003 0.012 127 T 0.002 0.001 0.009 0.001 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.002 0.897 0.033 0.016 0.031 128 L 0.001 0.003 0.046 0.001 0.001 0.003 0.009 0.001 0.001 0.001 0.005 0.002 0.873 0.004 0.026 0.027 129 S 0.003 0.004 0.018 0.002 0.001 0.021 0.007 0.001 0.001 0.001 0.014 0.013 0.894 0.003 0.004 0.017 130 V 0.009 0.024 0.016 0.007 0.001 0.014 0.004 0.001 0.001 0.001 0.078 0.038 0.785 0.007 0.004 0.012 131 E 0.002 0.025 0.026 0.010 0.001 0.021 0.006 0.001 0.001 0.001 0.017 0.097 0.765 0.007 0.012 0.011 132 A 0.001 0.002 0.021 0.004 0.001 0.019 0.007 0.001 0.001 0.001 0.029 0.012 0.885 0.003 0.007 0.007 133 E 0.003 0.018 0.021 0.011 0.001 0.008 0.006 0.003 0.001 0.001 0.054 0.051 0.796 0.007 0.008 0.014 134 A 0.006 0.007 0.016 0.012 0.001 0.020 0.015 0.002 0.001 0.001 0.012 0.051 0.788 0.029 0.012 0.027 135 A 0.002 0.006 0.046 0.005 0.001 0.017 0.015 0.002 0.001 0.001 0.033 0.013 0.812 0.006 0.024 0.017 136 E 0.005 0.021 0.033 0.010 0.001 0.020 0.008 0.004 0.002 0.001 0.036 0.042 0.735 0.012 0.015 0.055 137 S 0.022 0.015 0.043 0.019 0.001 0.020 0.009 0.003 0.002 0.001 0.039 0.046 0.722 0.011 0.017 0.029 138 S 0.009 0.022 0.060 0.011 0.001 0.043 0.012 0.002 0.001 0.001 0.035 0.040 0.709 0.012 0.012 0.032 139 A 0.006 0.019 0.060 0.015 0.001 0.029 0.015 0.002 0.001 0.001 0.057 0.043 0.710 0.009 0.010 0.021 140 A 0.004 0.019 0.054 0.018 0.005 0.021 0.039 0.003 0.001 0.001 0.034 0.067 0.689 0.020 0.008 0.016 141 E 0.009 0.028 0.065 0.035 0.008 0.016 0.053 0.018 0.003 0.001 0.027 0.029 0.540 0.079 0.043 0.046