# TARGET T0311 # 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/T0311/T0311.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 56.9073 # 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 0.099 0.028 0.199 0.373 0.020 0.054 0.026 0.005 0.019 0.015 0.018 0.024 0.070 0.007 0.004 0.042 2 K 0.055 0.066 0.269 0.339 0.017 0.105 0.009 0.019 0.003 0.003 0.022 0.020 0.054 0.002 0.008 0.008 3 M 0.012 0.041 0.061 0.295 0.119 0.190 0.028 0.015 0.013 0.014 0.095 0.026 0.047 0.028 0.003 0.014 4 A 0.027 0.240 0.073 0.365 0.018 0.036 0.015 0.057 0.011 0.004 0.030 0.047 0.036 0.006 0.027 0.007 5 N 0.019 0.071 0.129 0.393 0.014 0.041 0.027 0.015 0.071 0.032 0.018 0.035 0.047 0.007 0.013 0.068 6 H 0.154 0.040 0.244 0.290 0.018 0.062 0.020 0.012 0.014 0.009 0.029 0.016 0.042 0.003 0.008 0.039 7 P 0.050 0.102 0.258 0.468 0.009 0.027 0.003 0.006 0.006 0.008 0.014 0.018 0.018 0.001 0.002 0.011 8 R 0.013 0.009 0.021 0.080 0.277 0.464 0.040 0.003 0.001 0.014 0.014 0.031 0.020 0.010 0.001 0.002 9 P 0.002 0.033 0.008 0.031 0.001 0.088 0.001 0.310 0.001 0.001 0.456 0.015 0.039 0.001 0.016 0.001 10 G 0.002 0.009 0.003 0.019 0.001 0.021 0.001 0.001 0.086 0.060 0.147 0.554 0.087 0.001 0.001 0.009 11 D 0.055 0.008 0.011 0.023 0.001 0.006 0.001 0.001 0.001 0.001 0.069 0.348 0.477 0.001 0.001 0.001 12 I 0.001 0.001 0.017 0.010 0.001 0.041 0.001 0.001 0.001 0.001 0.016 0.054 0.856 0.001 0.001 0.002 13 I 0.001 0.007 0.001 0.004 0.001 0.015 0.001 0.001 0.001 0.001 0.004 0.033 0.935 0.001 0.001 0.001 14 Q 0.001 0.001 0.001 0.006 0.001 0.006 0.001 0.001 0.001 0.001 0.011 0.011 0.963 0.001 0.001 0.001 15 E 0.001 0.002 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.013 0.969 0.001 0.003 0.001 16 S 0.001 0.003 0.006 0.006 0.001 0.002 0.005 0.001 0.001 0.001 0.001 0.005 0.858 0.032 0.004 0.077 17 L 0.002 0.006 0.049 0.013 0.001 0.002 0.028 0.001 0.001 0.001 0.001 0.002 0.866 0.002 0.018 0.011 18 D 0.002 0.002 0.016 0.004 0.003 0.083 0.012 0.001 0.001 0.001 0.005 0.005 0.834 0.009 0.004 0.021 19 E 0.001 0.004 0.001 0.001 0.010 0.002 0.040 0.001 0.001 0.001 0.055 0.002 0.029 0.852 0.001 0.003 20 L 0.001 0.008 0.003 0.001 0.001 0.001 0.003 0.026 0.001 0.001 0.002 0.038 0.016 0.001 0.899 0.002 21 N 0.001 0.002 0.011 0.001 0.001 0.001 0.001 0.001 0.018 0.004 0.001 0.001 0.027 0.001 0.002 0.931 22 V 0.860 0.009 0.082 0.017 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.005 0.016 0.001 0.001 0.006 23 S 0.001 0.001 0.002 0.001 0.001 0.986 0.001 0.001 0.001 0.001 0.001 0.003 0.008 0.001 0.001 0.001 24 L 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.992 0.001 0.006 0.001 0.001 0.001 25 R 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.994 0.005 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 0.001 0.001 0.998 0.001 0.001 0.001 27 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 0.995 0.001 0.001 0.001 28 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 0.001 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 0.001 0.003 0.990 0.002 0.001 0.001 30 A 0.001 0.001 0.001 0.001 0.001 0.001 0.005 0.001 0.001 0.001 0.001 0.001 0.033 0.953 0.001 0.007 31 M 0.001 0.001 0.006 0.001 0.001 0.001 0.007 0.002 0.001 0.001 0.001 0.001 0.069 0.001 0.912 0.002 32 E 0.001 0.002 0.005 0.001 0.001 0.001 0.002 0.001 0.003 0.001 0.001 0.001 0.034 0.002 0.001 0.949 33 I 0.876 0.016 0.052 0.020 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.002 0.014 0.001 0.003 0.014 34 A 0.002 0.001 0.071 0.002 0.001 0.890 0.002 0.001 0.001 0.001 0.001 0.003 0.025 0.001 0.001 0.001 35 P 0.001 0.006 0.001 0.001 0.001 0.016 0.001 0.001 0.001 0.001 0.966 0.001 0.009 0.001 0.001 0.001 36 S 0.001 0.030 0.001 0.004 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.959 0.003 0.001 0.001 0.001 37 T 0.001 0.001 0.016 0.005 0.001 0.039 0.002 0.001 0.001 0.001 0.007 0.030 0.891 0.001 0.001 0.005 38 A 0.001 0.002 0.010 0.002 0.001 0.026 0.002 0.001 0.001 0.001 0.063 0.017 0.877 0.001 0.001 0.001 39 S 0.001 0.016 0.002 0.011 0.001 0.003 0.001 0.001 0.001 0.001 0.013 0.190 0.760 0.001 0.001 0.001 40 R 0.001 0.001 0.001 0.007 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.004 0.974 0.002 0.002 0.004 41 L 0.001 0.002 0.028 0.003 0.001 0.003 0.011 0.001 0.001 0.001 0.002 0.003 0.905 0.010 0.003 0.027 42 L 0.001 0.001 0.003 0.001 0.017 0.001 0.159 0.001 0.001 0.001 0.001 0.001 0.055 0.756 0.002 0.003 43 T 0.001 0.002 0.006 0.002 0.001 0.001 0.003 0.076 0.001 0.001 0.001 0.001 0.042 0.002 0.857 0.006 44 G 0.003 0.005 0.006 0.004 0.001 0.003 0.003 0.001 0.093 0.056 0.015 0.002 0.062 0.004 0.003 0.741 45 K 0.890 0.018 0.023 0.006 0.001 0.002 0.007 0.001 0.001 0.001 0.003 0.021 0.018 0.002 0.003 0.006 46 A 0.019 0.040 0.724 0.061 0.001 0.032 0.010 0.004 0.001 0.001 0.011 0.019 0.042 0.002 0.014 0.019 47 A 0.025 0.113 0.324 0.254 0.010 0.126 0.013 0.002 0.007 0.003 0.011 0.012 0.047 0.001 0.002 0.049 48 L 0.025 0.177 0.121 0.588 0.001 0.022 0.001 0.003 0.001 0.001 0.019 0.016 0.021 0.001 0.001 0.004 49 T 0.001 0.003 0.006 0.011 0.001 0.923 0.001 0.001 0.001 0.003 0.005 0.023 0.023 0.001 0.001 0.001 50 P 0.001 0.001 0.001 0.001 0.001 0.024 0.001 0.001 0.001 0.001 0.953 0.004 0.018 0.001 0.001 0.001 51 E 0.001 0.008 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.977 0.011 0.001 0.001 0.001 52 M 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.002 0.010 0.984 0.001 0.001 0.001 53 A 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.001 0.004 0.985 0.001 0.001 0.001 54 I 0.001 0.002 0.001 0.006 0.001 0.002 0.001 0.001 0.001 0.001 0.001 0.008 0.978 0.001 0.001 0.001 55 K 0.001 0.001 0.001 0.008 0.001 0.014 0.001 0.001 0.001 0.001 0.003 0.003 0.962 0.003 0.001 0.003 56 L 0.001 0.001 0.001 0.001 0.001 0.006 0.001 0.001 0.001 0.001 0.009 0.003 0.977 0.001 0.001 0.001 57 S 0.001 0.005 0.001 0.003 0.001 0.001 0.001 0.001 0.001 0.001 0.003 0.018 0.963 0.001 0.001 0.003 58 V 0.001 0.001 0.001 0.002 0.001 0.001 0.002 0.001 0.001 0.001 0.001 0.003 0.984 0.001 0.001 0.003 59 V 0.001 0.002 0.017 0.002 0.007 0.002 0.087 0.001 0.001 0.001 0.001 0.001 0.252 0.585 0.004 0.038 60 I 0.002 0.006 0.031 0.009 0.001 0.003 0.013 0.040 0.001 0.001 0.003 0.003 0.208 0.006 0.662 0.014 61 G 0.008 0.010 0.024 0.010 0.002 0.019 0.015 0.002 0.039 0.045 0.006 0.005 0.231 0.012 0.004 0.566 62 S 0.577 0.034 0.031 0.033 0.001 0.009 0.003 0.008 0.002 0.002 0.064 0.034 0.178 0.002 0.010 0.013 63 S 0.004 0.015 0.036 0.006 0.001 0.308 0.002 0.001 0.002 0.005 0.044 0.173 0.396 0.001 0.001 0.005 64 P 0.001 0.002 0.002 0.003 0.001 0.031 0.001 0.001 0.001 0.001 0.548 0.062 0.349 0.001 0.001 0.001 65 Q 0.001 0.016 0.002 0.006 0.001 0.001 0.001 0.001 0.001 0.001 0.009 0.757 0.205 0.001 0.001 0.001 66 M 0.001 0.001 0.001 0.002 0.001 0.002 0.001 0.001 0.001 0.001 0.003 0.005 0.986 0.001 0.001 0.001 67 W 0.001 0.002 0.004 0.001 0.001 0.003 0.005 0.001 0.001 0.001 0.003 0.008 0.972 0.001 0.001 0.001 68 L 0.001 0.002 0.001 0.003 0.001 0.005 0.001 0.001 0.001 0.001 0.002 0.011 0.971 0.001 0.002 0.001 69 N 0.001 0.001 0.002 0.004 0.001 0.004 0.001 0.001 0.001 0.001 0.005 0.007 0.962 0.001 0.001 0.010 70 L 0.001 0.001 0.001 0.002 0.001 0.002 0.001 0.001 0.001 0.001 0.007 0.009 0.970 0.002 0.002 0.003 71 Q 0.001 0.002 0.008 0.002 0.001 0.002 0.004 0.001 0.001 0.001 0.006 0.014 0.943 0.009 0.004 0.005 72 N 0.001 0.001 0.003 0.002 0.001 0.003 0.003 0.001 0.001 0.001 0.003 0.010 0.962 0.001 0.006 0.005 73 A 0.002 0.007 0.011 0.004 0.001 0.004 0.011 0.001 0.001 0.001 0.011 0.007 0.874 0.011 0.004 0.052 74 W 0.010 0.011 0.061 0.024 0.001 0.005 0.004 0.003 0.001 0.001 0.007 0.034 0.796 0.001 0.030 0.015 75 S 0.001 0.002 0.006 0.002 0.001 0.169 0.002 0.001 0.001 0.002 0.007 0.012 0.786 0.002 0.001 0.008 76 L 0.001 0.004 0.001 0.001 0.001 0.011 0.001 0.001 0.001 0.001 0.367 0.016 0.595 0.001 0.001 0.001 77 A 0.001 0.007 0.002 0.002 0.001 0.002 0.001 0.001 0.001 0.001 0.009 0.486 0.483 0.001 0.004 0.002 78 E 0.001 0.001 0.003 0.002 0.001 0.001 0.002 0.001 0.001 0.001 0.002 0.005 0.970 0.003 0.002 0.010 79 A 0.001 0.001 0.012 0.002 0.001 0.003 0.005 0.001 0.001 0.001 0.004 0.006 0.953 0.003 0.003 0.005 80 E 0.001 0.004 0.014 0.005 0.001 0.005 0.012 0.001 0.001 0.001 0.006 0.007 0.912 0.011 0.008 0.014 81 K 0.005 0.008 0.026 0.024 0.001 0.007 0.009 0.002 0.001 0.001 0.010 0.014 0.820 0.011 0.021 0.043 82 T 0.012 0.015 0.070 0.019 0.004 0.027 0.050 0.001 0.002 0.001 0.013 0.011 0.580 0.068 0.012 0.114 83 V 0.018 0.096 0.219 0.057 0.001 0.018 0.019 0.013 0.001 0.001 0.034 0.021 0.395 0.005 0.072 0.032 84 D 0.013 0.036 0.094 0.046 0.002 0.242 0.012 0.003 0.008 0.008 0.021 0.051 0.393 0.005 0.007 0.059 85 V 0.036 0.054 0.052 0.045 0.002 0.040 0.007 0.004 0.001 0.001 0.379 0.029 0.334 0.003 0.004 0.010 86 S 0.008 0.094 0.063 0.060 0.003 0.088 0.010 0.004 0.004 0.001 0.035 0.367 0.236 0.008 0.008 0.012 87 R 0.009 0.033 0.115 0.077 0.005 0.052 0.026 0.006 0.002 0.001 0.068 0.039 0.511 0.013 0.018 0.024 88 L 0.009 0.084 0.143 0.120 0.004 0.052 0.018 0.012 0.004 0.002 0.035 0.075 0.382 0.007 0.023 0.029 89 R 0.026 0.037 0.132 0.177 0.003 0.042 0.013 0.010 0.007 0.003 0.054 0.025 0.385 0.009 0.016 0.060 90 R 0.037 0.077 0.272 0.299 0.002 0.021 0.009 0.005 0.006 0.002 0.018 0.027 0.173 0.004 0.009 0.040 91 L 0.022 0.030 0.253 0.460 0.005 0.050 0.007 0.003 0.002 0.001 0.011 0.009 0.118 0.003 0.004 0.022 92 V 0.015 0.051 0.186 0.453 0.016 0.134 0.013 0.004 0.001 0.002 0.017 0.009 0.081 0.004 0.002 0.010 93 T 0.008 0.087 0.057 0.419 0.023 0.210 0.012 0.017 0.003 0.003 0.053 0.024 0.066 0.006 0.005 0.006 94 Q 0.009 0.175 0.064 0.384 0.017 0.073 0.011 0.025 0.015 0.004 0.091 0.033 0.067 0.005 0.008 0.019 95 S 0.028 0.141 0.168 0.452 0.008 0.022 0.010 0.008 0.017 0.005 0.013 0.037 0.045 0.004 0.008 0.034 96 T 0.030 0.017 0.200 0.166 0.127 0.230 0.087 0.005 0.004 0.009 0.018 0.018 0.061 0.012 0.004 0.012 97 P 0.013 0.134 0.075 0.131 0.054 0.121 0.020 0.136 0.003 0.004 0.208 0.021 0.046 0.012 0.017 0.007