# 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.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 8.88843 # 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 0.081 0.042 0.156 0.193 0.027 0.190 0.036 0.008 0.012 0.017 0.040 0.034 0.113 0.009 0.006 0.036 2 A 0.048 0.147 0.150 0.243 0.017 0.058 0.029 0.031 0.006 0.005 0.104 0.054 0.062 0.018 0.014 0.014 3 S 0.019 0.087 0.113 0.233 0.008 0.209 0.016 0.018 0.029 0.010 0.030 0.098 0.076 0.004 0.024 0.026 4 K 0.049 0.139 0.204 0.277 0.005 0.019 0.015 0.005 0.013 0.006 0.085 0.040 0.078 0.005 0.007 0.054 5 K 0.060 0.041 0.142 0.169 0.029 0.291 0.047 0.003 0.005 0.004 0.015 0.102 0.061 0.013 0.005 0.014 6 P 0.015 0.140 0.208 0.140 0.007 0.067 0.024 0.042 0.002 0.003 0.219 0.026 0.065 0.005 0.023 0.015 7 D 0.014 0.207 0.045 0.100 0.003 0.301 0.005 0.006 0.039 0.010 0.026 0.125 0.057 0.001 0.013 0.050 8 K 0.075 0.205 0.324 0.170 0.001 0.005 0.001 0.004 0.003 0.005 0.081 0.032 0.066 0.001 0.003 0.024 9 T 0.001 0.001 0.001 0.001 0.001 0.982 0.001 0.001 0.001 0.001 0.001 0.011 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 0.989 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 0.993 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 0.999 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 0.993 0.001 0.001 0.005 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 0.996 0.001 0.001 0.001 18 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 0.992 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 0.001 0.002 0.970 0.004 0.001 0.019 20 L 0.001 0.001 0.014 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.978 0.001 0.002 0.001 21 K 0.001 0.001 0.002 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.002 0.986 0.001 0.001 0.002 22 L 0.001 0.002 0.001 0.006 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.011 0.973 0.001 0.001 0.001 23 E 0.001 0.005 0.003 0.008 0.001 0.014 0.002 0.001 0.001 0.001 0.003 0.011 0.933 0.010 0.001 0.008 24 N 0.001 0.001 0.001 0.001 0.001 0.054 0.001 0.001 0.001 0.001 0.009 0.007 0.915 0.001 0.010 0.001 25 K 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.102 0.013 0.878 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 0.108 0.883 0.002 0.001 0.002 27 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.992 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 0.990 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 0.991 0.001 0.001 0.002 30 K 0.001 0.001 0.004 0.001 0.001 0.001 0.003 0.001 0.001 0.001 0.001 0.002 0.933 0.020 0.003 0.029 31 V 0.001 0.001 0.017 0.002 0.001 0.002 0.023 0.001 0.001 0.001 0.002 0.003 0.918 0.011 0.010 0.009 32 K 0.002 0.010 0.038 0.008 0.002 0.005 0.028 0.002 0.001 0.001 0.005 0.004 0.806 0.033 0.014 0.042 33 S 0.008 0.007 0.016 0.010 0.014 0.008 0.106 0.006 0.003 0.002 0.012 0.004 0.184 0.548 0.023 0.049 34 S 0.008 0.058 0.137 0.020 0.002 0.007 0.054 0.020 0.003 0.001 0.013 0.010 0.152 0.011 0.472 0.033 35 G 0.054 0.034 0.116 0.085 0.003 0.019 0.037 0.006 0.055 0.035 0.017 0.032 0.129 0.015 0.018 0.342 36 A 0.484 0.041 0.133 0.124 0.009 0.027 0.028 0.004 0.007 0.003 0.022 0.023 0.047 0.010 0.006 0.032 37 V 0.027 0.093 0.351 0.397 0.007 0.021 0.011 0.010 0.004 0.003 0.013 0.014 0.017 0.003 0.010 0.019 38 S 0.014 0.027 0.077 0.245 0.047 0.477 0.021 0.007 0.005 0.015 0.011 0.018 0.024 0.002 0.004 0.007 39 S 0.014 0.148 0.031 0.094 0.015 0.126 0.007 0.046 0.004 0.006 0.452 0.015 0.028 0.003 0.004 0.005 40 D 0.010 0.107 0.019 0.057 0.003 0.176 0.005 0.019 0.029 0.009 0.088 0.431 0.025 0.004 0.014 0.005 41 D 0.045 0.199 0.194 0.084 0.002 0.034 0.018 0.004 0.026 0.004 0.073 0.125 0.095 0.006 0.027 0.065 42 S 0.096 0.052 0.339 0.129 0.002 0.031 0.020 0.003 0.007 0.002 0.029 0.121 0.080 0.003 0.012 0.072 43 I 0.038 0.054 0.594 0.120 0.004 0.041 0.014 0.002 0.003 0.001 0.011 0.007 0.047 0.003 0.003 0.058 44 L 0.010 0.141 0.268 0.549 0.001 0.004 0.002 0.003 0.001 0.001 0.002 0.003 0.008 0.001 0.002 0.006 45 T 0.001 0.001 0.002 0.004 0.001 0.985 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.001 0.001 0.001 46 A 0.001 0.002 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.989 0.001 0.003 0.001 0.001 0.001 47 A 0.001 0.013 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.980 0.002 0.001 0.001 0.001 48 K 0.002 0.003 0.038 0.007 0.001 0.007 0.011 0.001 0.001 0.001 0.007 0.016 0.845 0.002 0.029 0.031 49 R 0.006 0.011 0.118 0.009 0.001 0.021 0.009 0.002 0.002 0.001 0.047 0.019 0.692 0.003 0.005 0.057 50 E 0.036 0.050 0.066 0.046 0.001 0.019 0.005 0.002 0.002 0.001 0.025 0.076 0.650 0.002 0.006 0.014 51 S 0.011 0.012 0.115 0.120 0.001 0.017 0.003 0.001 0.001 0.001 0.020 0.022 0.649 0.001 0.003 0.024 52 I 0.004 0.011 0.086 0.131 0.002 0.034 0.003 0.001 0.001 0.001 0.018 0.017 0.680 0.002 0.001 0.009 53 I 0.001 0.011 0.016 0.049 0.003 0.135 0.005 0.001 0.001 0.001 0.020 0.021 0.734 0.001 0.001 0.002 54 V 0.001 0.079 0.010 0.077 0.001 0.032 0.004 0.002 0.001 0.001 0.037 0.046 0.703 0.001 0.003 0.005 55 S 0.003 0.007 0.008 0.050 0.001 0.029 0.002 0.002 0.001 0.001 0.027 0.053 0.806 0.001 0.003 0.008 56 S 0.002 0.005 0.011 0.008 0.001 0.031 0.001 0.001 0.001 0.001 0.055 0.039 0.840 0.001 0.001 0.004 57 S 0.001 0.002 0.002 0.002 0.001 0.009 0.001 0.001 0.001 0.001 0.029 0.049 0.904 0.001 0.001 0.001 58 R 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.004 0.035 0.955 0.001 0.001 0.001 59 A 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.004 0.013 0.977 0.001 0.001 0.002 60 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.013 0.981 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 0.002 0.004 0.993 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 0.004 0.995 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 0.005 0.994 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 0.997 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 0.002 0.994 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 0.990 0.001 0.002 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 0.979 0.002 0.001 0.010 68 I 0.001 0.001 0.001 0.001 0.001 0.004 0.001 0.001 0.001 0.001 0.002 0.006 0.985 0.001 0.001 0.001 69 E 0.001 0.005 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.010 0.975 0.001 0.001 0.002 70 A 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.004 0.988 0.001 0.001 0.001 71 K 0.001 0.001 0.010 0.003 0.001 0.002 0.001 0.001 0.001 0.001 0.003 0.004 0.960 0.002 0.001 0.014 72 V 0.001 0.001 0.002 0.003 0.001 0.007 0.002 0.001 0.001 0.001 0.003 0.008 0.971 0.001 0.001 0.001 73 R 0.001 0.008 0.005 0.003 0.001 0.006 0.004 0.001 0.001 0.001 0.005 0.008 0.952 0.003 0.002 0.004 74 S 0.001 0.002 0.001 0.006 0.001 0.006 0.002 0.001 0.001 0.001 0.008 0.008 0.955 0.001 0.006 0.003 75 R 0.002 0.012 0.021 0.006 0.001 0.004 0.008 0.001 0.001 0.001 0.017 0.018 0.811 0.018 0.006 0.074 76 A 0.010 0.008 0.034 0.015 0.002 0.008 0.050 0.001 0.001 0.001 0.006 0.026 0.720 0.077 0.023 0.020 77 A 0.003 0.028 0.121 0.019 0.001 0.021 0.033 0.004 0.001 0.001 0.007 0.009 0.623 0.012 0.079 0.040 78 K 0.021 0.042 0.079 0.093 0.001 0.014 0.021 0.005 0.008 0.003 0.041 0.013 0.307 0.016 0.020 0.315 79 A 0.175 0.051 0.300 0.119 0.002 0.027 0.019 0.002 0.005 0.002 0.012 0.024 0.155 0.005 0.015 0.086 80 V 0.023 0.117 0.502 0.227 0.001 0.017 0.007 0.002 0.001 0.002 0.007 0.010 0.055 0.002 0.003 0.023 81 T 0.001 0.002 0.003 0.004 0.001 0.947 0.001 0.001 0.001 0.001 0.004 0.008 0.027 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 0.966 0.003 0.016 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 0.010 0.967 0.016 0.001 0.001 0.001 84 E 0.001 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.002 0.023 0.967 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 0.006 0.005 0.986 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 0.019 0.976 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 0.996 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 0.990 0.003 0.001 0.003 89 L 0.001 0.001 0.002 0.001 0.001 0.001 0.015 0.001 0.001 0.001 0.001 0.001 0.950 0.022 0.004 0.003 90 Q 0.001 0.009 0.007 0.003 0.001 0.001 0.009 0.001 0.001 0.001 0.001 0.003 0.862 0.004 0.079 0.020 91 S 0.009 0.007 0.016 0.009 0.001 0.001 0.005 0.001 0.005 0.001 0.001 0.001 0.182 0.014 0.011 0.739 92 L 0.245 0.008 0.420 0.024 0.001 0.018 0.012 0.001 0.001 0.001 0.007 0.003 0.217 0.004 0.013 0.029 93 T 0.015 0.274 0.444 0.205 0.001 0.005 0.002 0.001 0.001 0.001 0.001 0.003 0.024 0.001 0.001 0.022 94 L 0.011 0.003 0.060 0.916 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.001 0.001 0.002 95 R 0.002 0.003 0.376 0.613 0.001 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 0.990 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 0.006 0.956 0.004 0.027 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 98 V 0.001 0.016 0.006 0.963 0.003 0.007 0.001 0.001 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.001 99 S 0.001 0.029 0.012 0.515 0.024 0.405 0.001 0.002 0.002 0.002 0.002 0.004 0.001 0.001 0.001 0.001 100 M 0.002 0.129 0.018 0.424 0.048 0.159 0.002 0.016 0.002 0.002 0.189 0.003 0.004 0.001 0.001 0.001 101 E 0.003 0.134 0.012 0.138 0.207 0.227 0.016 0.019 0.014 0.007 0.052 0.156 0.005 0.008 0.001 0.001 102 E 0.008 0.145 0.057 0.089 0.062 0.072 0.033 0.177 0.012 0.007 0.178 0.046 0.037 0.012 0.056 0.009