# One-dimensional structure prediction by Frag1D version 1.4, 2011-10-19 (c) Shu. # Reference: # Tuping Zhou*, Nanjiang Shu* and Sven Hovmoller. A Novel Method for # Accurate One-dimensional Protein Structure Prediction based on Fragment # Matching, Bioinformatics, 2010;26(4):470-477. (*Co-first author) # Explanation: # Num Residue index in the sequence. # AA One-letter amino acid code. # Sec Predicted three state secondary structure, # (H, S and R). # ConfSec Confidence of the predicted secondary structure. # S8 Predicted 8 state Shape String, # (R, S, U, V, A, K, G and T). # ConfS8 Confidence of the predicted 8 state Shape String. # S3 Predicted 3 state Shape String # (R, S, U, V -> S; A, K -> H; G, T - > T). # ConfS3 Confidence of the predicted 3 state Shape String. # //BEGIN query 1, id = query_0 # Num AA Sec ConfSec S8 ConfS8 S3 ConfS3 1 M R 0.874 A 0.000 H 0.000 2 A R 0.751 A 0.750 H 0.797 3 Q H 0.589 A 0.900 H 0.926 4 T H 0.791 A 0.923 H 1.000 5 S H 0.658 A 0.647 H 0.759 6 T H 0.653 A 0.722 H 0.821 7 I H 0.650 A 0.619 H 0.685 8 Q H 0.662 A 0.625 H 0.690 9 N H 0.624 A 0.690 H 0.775 10 D R 0.599 A 0.576 H 0.674 11 T H 0.827 A 0.853 H 0.937 12 K H 0.872 A 0.857 H 0.890 13 A H 0.850 A 0.882 H 0.937 14 A H 0.965 A 1.000 H 1.000 15 E H 0.949 A 0.946 H 0.989 16 E H 0.936 A 0.927 H 0.991 17 Y H 0.958 A 0.977 H 1.000 18 A H 0.961 A 1.000 H 1.000 19 A H 0.981 A 1.000 H 1.000 20 R H 0.918 A 0.937 H 1.000 21 V H 0.936 A 0.960 H 0.995 22 F H 0.971 A 0.981 H 1.000 23 E H 0.987 A 1.000 H 1.000 24 T H 0.987 A 1.000 H 1.000 25 I H 0.945 A 0.964 H 0.997 26 K H 0.958 A 0.981 H 0.997 27 Q H 0.943 A 0.963 H 0.981 28 R H 0.869 A 0.815 H 0.981 29 N R 0.958 U 0.500 S 0.662 30 P R 0.972 A 0.833 H 0.869 31 G R 0.972 K 0.623 H 0.834 32 E R 0.899 U 0.407 S 0.853 33 T H 0.796 A 0.833 H 0.901 34 E H 0.866 A 0.868 H 0.931 35 F H 0.899 A 0.926 H 0.949 36 H H 0.928 A 0.907 H 0.981 37 Q H 0.958 A 0.963 H 0.981 38 A H 0.972 A 0.981 H 0.997 39 V H 0.987 A 1.000 H 1.000 40 E H 0.972 A 0.981 H 1.000 41 E H 0.971 A 0.981 H 0.996 42 F H 0.971 A 1.000 H 1.000 43 L H 0.956 A 0.981 H 0.996 44 N H 0.896 A 0.962 H 1.000 45 S H 0.611 A 0.906 H 0.931 46 V H 0.671 A 0.453 H 0.915 47 I H 0.851 A 0.868 H 0.899 48 P H 0.791 A 0.811 H 0.850 49 A H 0.896 A 0.906 H 0.931 50 L H 0.884 A 0.870 H 0.901 51 A H 0.869 A 0.870 H 0.917 52 K H 0.582 A 0.873 H 0.934 53 E R 0.959 U 0.727 S 0.950 54 P H 0.800 A 0.945 H 0.966 55 K H 0.858 A 0.909 H 0.981 56 Y H 0.916 A 0.855 H 0.934 57 E H 0.887 A 0.889 H 0.949 58 A H 0.869 A 0.944 H 0.997 59 N R 0.884 K 0.685 H 0.965 60 G R 0.887 T 0.800 T 0.856 61 I H 0.713 A 0.909 H 0.981 62 L H 0.785 A 0.745 H 0.793 63 E H 0.829 A 0.800 H 0.840 64 Q H 0.829 A 0.800 H 0.840 65 L H 0.814 A 0.818 H 0.872 66 T R 0.582 K 0.382 H 0.793 67 E R 0.698 S 0.519 S 0.773 68 P R 0.731 R 0.491 S 0.639 69 E R 0.741 A 0.800 H 0.944 70 R S 0.650 S 0.615 S 0.731 71 L S 0.833 S 0.712 S 0.930 72 I S 0.969 S 0.843 S 0.945 73 S S 0.938 S 0.843 S 0.962 74 F S 0.923 S 0.863 S 0.979 75 R S 0.954 R 0.569 S 0.962 76 V S 0.938 S 0.941 S 0.996 77 P S 0.802 R 0.827 S 0.979 78 W S 0.791 S 0.679 S 0.964 79 V S 0.810 S 0.926 S 0.981 80 D R 0.914 R 0.519 S 0.997 81 D R 0.971 A 0.887 H 0.964 82 S R 0.955 K 0.769 H 0.913 83 G R 0.907 T 0.863 T 0.979 84 A R 0.818 R 0.745 S 0.962 85 V S 0.848 R 0.596 S 0.996 86 N S 0.818 S 0.750 S 0.979 87 V S 0.818 S 0.769 S 0.864 88 N S 0.695 S 0.615 S 0.797 89 R R 0.619 S 0.500 S 0.665 90 G S 0.641 S 0.453 S 0.590 91 Y S 0.766 S 0.759 S 0.965 92 R S 0.810 S 0.704 S 0.885 93 V S 0.861 S 0.768 S 0.982 94 Q S 0.849 S 0.375 S 0.905 95 F S 0.797 S 0.569 S 0.656 96 N S 0.720 S 0.678 S 0.794 97 S R 0.782 K 0.500 H 0.754 98 A R 0.790 A 0.790 H 0.860 99 I R 0.853 K 0.541 H 0.900 100 G R 0.906 S 0.619 S 0.753 101 P R 0.846 R 0.781 S 0.905 102 Y S 0.812 R 0.609 S 0.838 103 K S 0.837 S 0.815 S 0.880 104 G S 0.821 S 0.762 S 0.862 105 G S 0.839 R 0.651 S 0.862 106 L S 0.851 S 0.818 S 0.869 107 R S 0.800 S 0.692 S 0.787 108 F S 0.784 S 0.714 S 0.944 109 H R 0.768 S 0.823 S 0.999 110 P R 0.853 A 0.597 H 0.679 111 S R 0.866 A 0.627 H 0.721 112 V R 0.774 R 0.431 S 0.671 113 T R 0.715 S 0.552 S 0.701 114 G H 0.779 A 0.786 H 0.843 115 S H 0.821 A 0.821 H 0.905 116 I H 0.800 A 0.836 H 0.887 117 V H 0.814 A 0.800 H 0.840 118 K H 0.785 A 0.836 H 0.872 119 F H 0.793 A 0.789 H 0.862 120 L H 0.701 A 0.810 H 0.923 121 G H 0.598 A 0.508 H 0.590 122 F H 0.690 A 0.683 H 0.769 123 E H 0.747 A 0.738 H 0.815 124 Q H 0.793 A 0.762 H 0.808 125 I H 0.809 A 0.797 H 0.891 126 F H 0.812 A 0.785 H 0.854 127 K H 0.827 A 0.833 H 0.882 128 N H 0.827 A 0.788 H 0.856 129 S H 0.861 A 0.923 H 0.959 130 L H 0.800 A 0.828 H 0.932 131 T R 0.910 A 0.452 H 0.901 132 G R 0.898 T 0.800 T 0.880 133 L R 0.885 R 0.500 S 0.986 134 P R 0.920 V 0.609 S 1.000 135 I R 0.881 S 0.778 S 0.944 136 G R 0.637 R 0.683 S 0.794 137 G S 0.793 S 0.651 S 0.739 138 G S 0.772 S 0.687 S 0.838 139 K S 0.756 S 0.714 S 0.808 140 G S 0.726 S 0.613 S 0.735 141 G S 0.708 S 0.590 S 0.660 142 S S 0.756 S 0.650 S 0.754 143 D R 0.625 K 0.373 H 0.648 144 F R 0.788 R 0.492 S 0.823 145 D R 0.880 S 0.632 S 0.846 146 P R 0.891 A 0.750 H 0.813 147 K R 0.946 R 0.554 S 0.628 148 G R 0.988 T 0.800 T 0.872 149 K R 0.919 R 0.737 S 0.892 150 S R 0.907 R 0.828 S 0.968 151 D H 0.869 A 0.881 H 0.969 152 A H 0.900 A 0.900 H 0.941 153 E H 0.928 A 0.934 H 0.970 154 V H 0.906 A 0.905 H 0.931 155 M H 0.896 A 0.906 H 0.932 156 R H 0.898 A 0.892 H 0.920 157 F H 0.911 A 0.909 H 0.934 158 C H 0.935 A 0.939 H 0.960 159 Q H 0.923 A 0.939 H 0.960 160 S H 0.922 A 0.923 H 0.946 161 F H 0.920 A 0.891 H 0.959 162 M H 0.933 A 0.906 H 0.959 163 T H 0.933 A 0.953 H 0.972 164 E H 0.957 A 1.000 H 1.000 165 L H 0.970 A 0.984 H 1.000 166 Q H 0.942 A 0.952 H 0.985 167 K H 0.926 A 0.917 H 0.969 168 H H 0.715 A 0.500 H 0.909 169 I H 0.652 A 0.500 H 0.612 170 G R 0.842 G 0.431 T 0.597 171 P R 0.866 A 0.655 H 0.790 172 D R 0.818 K 0.571 H 0.751 173 T R 0.835 A 0.561 H 0.665 174 D S 0.779 S 0.614 S 0.877 175 V S 0.842 S 0.831 S 0.983 176 P S 0.703 R 0.883 S 0.984 177 A S 0.683 S 0.541 S 0.928 178 G R 0.739 R 0.524 S 0.685 179 D R 0.784 S 0.672 S 0.945 180 I R 0.727 R 0.600 S 0.907 181 G R 0.779 T 0.631 T 0.748 182 V R 0.764 S 0.815 S 0.907 183 G R 0.781 S 0.387 S 0.804 184 G H 0.831 A 0.790 H 0.860 185 R H 0.856 A 0.825 H 0.917 186 E H 0.812 A 0.885 H 0.928 187 I H 0.808 A 0.800 H 0.840 188 G H 0.733 A 0.661 H 0.721 189 Y H 0.756 A 0.741 H 0.790 190 L H 0.779 A 0.719 H 0.801 191 F H 0.698 A 0.655 H 0.809 192 G H 0.626 A 0.545 H 0.653 193 Q H 0.669 A 0.673 H 0.778 194 Y H 0.742 A 0.736 H 0.834 195 K H 0.821 A 0.792 H 0.834 196 R H 0.771 A 0.904 H 0.946 197 L H 0.781 A 0.778 H 0.837 198 R H 0.751 A 0.820 H 0.875 199 G R 0.674 T 0.440 T 0.548 200 A H 0.596 A 0.451 H 0.557 201 Y H 0.611 A 0.765 H 0.894 202 D R 0.656 A 0.434 H 0.574 203 A H 0.611 A 0.545 H 0.778 204 G R 0.563 K 0.333 H 0.635 205 T H 0.557 A 0.593 H 0.692 206 L R 0.708 S 0.689 S 0.829 207 T R 0.756 S 0.500 S 0.860 208 G R 0.896 T 0.781 T 0.838 209 K R 0.922 R 0.692 S 0.814 210 G R 0.875 R 0.591 S 0.765 211 L H 0.683 A 0.682 H 0.739 212 S H 0.683 A 0.692 H 0.774 213 Y H 0.703 K 0.677 H 0.827 214 G R 0.873 T 0.677 T 0.761 215 G R 0.800 R 0.631 S 0.761 216 S R 0.788 R 0.391 S 0.596 217 L R 0.751 R 0.344 S 0.542 218 A R 0.727 R 0.375 S 0.542 219 R R 0.755 A 0.815 H 0.880 220 T H 0.611 A 0.892 H 0.920 221 E H 0.624 A 0.862 H 0.907 222 A H 0.863 A 0.891 H 0.918 223 T H 0.815 A 0.828 H 0.905 224 G H 0.784 A 0.750 H 0.865 225 Y H 0.767 A 0.758 H 0.856 226 G H 0.755 A 0.746 H 0.808 227 L H 0.800 A 0.800 H 0.840 228 V H 0.788 A 0.754 H 0.801 229 Y H 0.784 A 0.781 H 0.838 230 F H 0.756 A 0.758 H 0.804 231 T H 0.773 A 0.754 H 0.829 232 V H 0.848 A 0.850 H 0.898 233 E H 0.923 A 0.966 H 0.983 234 M H 0.961 A 0.982 H 0.997 235 L H 0.989 A 1.000 H 1.000 236 E H 0.988 A 0.982 H 1.000 237 A H 0.916 A 0.982 H 0.997 238 A R 0.858 K 0.727 H 0.950 239 G R 0.975 T 0.875 T 0.936 240 E R 0.921 S 0.596 S 0.892 241 T R 0.842 S 0.603 S 0.938 242 I R 0.795 K 0.583 H 0.869 243 R R 0.915 R 0.852 S 0.928 244 G R 0.931 T 0.921 T 0.944 245 K R 0.933 R 0.859 S 0.999 246 K S 0.958 S 0.723 S 1.000 247 I S 1.000 S 1.000 S 1.000 248 V S 1.000 S 0.692 S 1.000 249 V S 1.000 S 0.970 S 0.986 250 S S 0.718 S 0.540 S 0.985 251 G R 0.958 G 0.859 T 0.932 252 S R 0.970 K 0.508 H 0.712 253 G R 0.945 R 0.703 S 0.757 254 N H 0.781 A 0.810 H 0.849 255 V H 0.782 A 0.750 H 0.797 256 A H 0.797 A 0.759 H 0.805 257 I H 0.785 A 0.745 H 0.793 258 Y H 0.810 A 0.815 H 0.853 259 A H 0.869 A 0.852 H 0.885 260 I H 0.866 A 0.849 H 0.883 261 E H 0.926 A 0.925 H 0.948 262 K H 0.971 A 0.981 H 0.996 263 A H 0.943 A 0.963 H 0.997 264 H H 0.975 A 0.965 H 1.000 265 E H 0.991 A 1.000 H 1.000 266 L H 0.631 A 0.607 H 1.000 267 G R 0.981 T 0.984 T 1.000 268 A R 0.970 R 0.667 S 1.000 269 K S 0.934 R 0.500 S 0.945 270 V S 1.000 S 0.631 S 1.000 271 I S 1.000 S 0.585 S 0.682 272 V S 1.000 S 0.909 S 0.999 273 C S 0.983 S 0.831 S 0.973 274 S S 0.599 S 0.677 S 0.814 275 D R 0.680 A 0.476 H 0.657 276 S R 0.944 A 0.597 H 0.721 277 A R 0.786 A 0.607 H 0.843 278 G S 0.598 S 0.475 S 0.590 279 F S 0.687 S 0.621 S 0.894 280 V S 0.849 S 0.807 S 0.937 281 Y S 0.818 S 0.696 S 0.920 282 D R 0.761 U 0.345 S 0.934 283 K R 0.737 A 0.926 H 0.949 284 E R 0.881 A 0.491 H 0.980 285 G R 0.818 T 0.462 T 0.897 286 I R 0.720 R 0.392 S 0.945 287 K R 0.676 R 0.510 S 0.767 288 V H 0.620 A 0.729 H 0.815 289 E H 0.763 A 0.851 H 0.903 290 T H 0.826 A 0.848 H 0.919 291 V H 0.874 A 0.867 H 0.898 292 K H 0.944 A 0.956 H 0.974 293 Q H 0.963 A 0.978 H 1.000 294 L H 0.929 A 0.957 H 0.975 295 K H 0.911 A 0.957 H 0.975 296 E H 0.860 A 0.957 H 0.994 297 V H 0.796 A 0.830 H 0.884 298 E H 0.653 A 0.630 H 0.713 299 R H 0.603 A 0.787 H 0.884 300 K H 0.572 A 0.480 H 0.565 301 R H 0.543 A 0.462 H 0.615 302 I H 0.596 A 0.725 H 0.793 303 S H 0.783 A 0.882 H 0.945 304 E H 0.876 A 0.902 H 0.928 305 Y H 0.907 A 0.941 H 0.962 306 V H 0.934 A 0.959 H 0.977 307 I H 0.883 A 0.979 H 1.000 308 I H 0.813 A 0.723 H 0.939 309 H R 0.779 U 0.532 S 0.811 310 P R 0.763 A 0.766 H 0.811 311 S R 0.784 K 0.437 H 0.726 312 A R 0.692 R 0.429 S 0.802 313 E S 0.699 R 0.400 S 0.806 314 Y S 0.767 S 0.647 S 0.911 315 Y S 0.695 S 0.308 S 0.880 316 A R 0.656 R 0.642 S 0.769 317 G R 0.901 T 0.709 T 0.778 318 G R 0.861 S 0.518 S 0.721 319 D R 0.723 R 0.474 S 0.726 320 V H 0.598 K 0.368 H 0.620 321 W H 0.618 A 0.393 H 0.674 322 S H 0.643 A 0.339 H 0.679 323 V R 0.760 R 0.687 S 0.972 324 P R 0.910 R 0.862 S 0.946 325 C R 0.875 S 0.682 S 0.830 326 D R 0.875 A 0.803 H 0.869 327 I S 0.875 S 0.848 S 0.895 328 A S 0.911 S 0.818 S 0.882 329 L S 0.863 U 0.652 S 0.947 330 P S 0.581 R 0.833 S 0.895 331 C R 0.899 K 0.621 H 0.778 332 A R 0.935 S 0.667 S 0.960 333 T R 0.933 R 0.508 S 0.931 334 Q R 0.797 R 0.635 S 0.712 335 N R 0.781 T 0.635 T 0.712 336 E R 0.747 A 0.812 H 0.918 337 I R 0.784 R 0.365 S 0.849 338 N R 0.856 S 0.435 S 0.874 339 A H 0.930 A 0.968 H 0.985 340 D H 0.926 A 0.983 H 1.000 341 Q H 0.963 A 0.966 H 0.998 342 A H 0.991 A 1.000 H 1.000 343 R H 0.976 A 0.983 H 0.998 344 A H 0.975 A 0.911 H 0.997 345 L H 0.945 A 0.964 H 0.981 346 V H 0.972 A 0.981 H 0.997 347 K H 0.899 A 0.963 H 0.997 348 N R 0.899 K 0.500 H 0.917 349 G R 0.905 T 0.857 T 0.905 350 V R 0.839 R 0.589 S 0.951 351 I S 0.742 S 0.724 S 0.820 352 A S 0.842 S 0.695 S 0.867 353 V S 0.835 S 0.783 S 0.855 354 A S 0.624 S 0.683 S 0.808 355 E R 0.831 R 0.355 S 0.735 356 G R 0.908 A 0.687 H 0.744 357 A R 0.910 R 0.723 S 0.840 358 N R 0.910 R 0.708 S 0.827 359 M R 0.883 T 0.578 T 0.650 360 P R 0.894 A 0.635 H 0.712 361 S R 0.841 S 0.407 S 0.779 362 T R 0.877 R 0.439 S 0.771 363 L H 0.796 A 0.759 H 0.805 364 E H 0.943 A 0.944 H 0.965 365 A H 0.986 A 1.000 H 1.000 366 V H 0.967 A 0.980 H 0.995 367 D H 0.966 A 1.000 H 1.000 368 I H 0.933 A 0.958 H 0.977 369 Y H 0.886 A 0.878 H 0.942 370 H H 0.841 A 0.900 H 0.926 371 E H 0.741 A 0.788 H 0.897 372 N R 0.832 K 0.509 H 0.903 373 K R 0.894 T 0.596 T 0.741 374 V R 0.756 R 0.550 S 0.912 375 L S 0.919 S 0.468 S 0.874 376 F S 0.879 S 0.871 S 0.985 377 G R 0.644 S 0.508 S 0.914 378 P R 0.806 R 0.857 S 0.931 379 A H 0.831 A 0.839 H 0.874 380 K H 0.853 A 0.871 H 0.901 381 A H 0.879 A 0.855 H 0.901 382 A H 0.881 A 0.887 H 0.915 383 N R 0.735 K 0.609 H 0.959 384 A R 0.731 A 0.937 H 0.999 385 G H 0.768 A 0.667 H 0.876 386 G H 0.781 A 0.698 H 0.767 387 V H 0.825 A 0.803 H 0.857 388 A H 0.848 A 0.900 H 0.969 389 V H 0.852 A 0.828 H 0.879 390 S H 0.877 A 0.947 H 0.967 391 A H 0.872 A 0.855 H 0.903 392 L H 0.863 A 0.846 H 0.880 393 E H 0.845 A 0.843 H 0.877 394 M H 0.857 A 0.840 H 0.926 395 A H 0.757 A 0.714 H 0.802 396 Q H 0.714 A 0.812 H 0.851 397 N H 0.635 A 0.653 H 0.854 398 S H 0.611 A 0.558 H 0.648 399 T H 0.647 A 0.600 H 0.700 400 R R 0.633 A 0.345 H 0.481 401 M R 0.687 S 0.649 S 0.756 402 S R 0.690 S 0.576 S 0.750 403 W R 0.731 R 0.587 S 0.931 404 T R 0.747 R 0.766 S 0.959 405 F H 0.885 A 0.877 H 0.907 406 Q H 0.947 A 0.955 H 0.973 407 T H 0.971 A 0.924 H 0.999 408 V H 0.911 A 0.909 H 0.934 409 D H 0.935 A 0.939 H 0.960 410 E H 0.983 A 1.000 H 1.000 411 H H 0.983 A 1.000 H 1.000 412 L H 0.982 A 1.000 H 1.000 413 Q H 0.981 A 1.000 H 1.000 414 N H 0.825 A 0.984 H 0.998 415 I H 0.940 A 0.950 H 0.969 416 M H 0.923 A 0.932 H 0.969 417 K H 0.935 A 0.931 H 0.953 418 D H 0.905 A 0.895 H 0.937 419 I H 0.887 A 0.945 H 0.966 420 H H 0.843 A 0.800 H 0.872 421 K H 0.843 A 0.925 H 0.964 422 N H 0.806 A 0.755 H 0.883 423 S H 0.881 A 0.925 H 0.948 424 S H 0.926 A 0.962 H 0.996 425 N H 0.941 A 0.943 H 0.996 426 A H 0.986 A 1.000 H 1.000 427 A H 0.958 A 0.981 H 0.997 428 S H 0.959 A 1.000 H 1.000 429 E H 0.945 A 0.964 H 0.981 430 Y R 0.669 K 0.745 H 0.934 431 G R 0.943 T 0.722 T 0.869 432 A R 0.941 A 0.340 H 0.655 433 S R 0.881 K 0.415 H 0.542 434 G R 0.851 T 0.321 T 0.493 435 N R 0.731 R 0.434 S 0.769 436 L S 0.611 S 0.434 S 0.639 437 V S 0.671 S 0.547 S 0.704 438 I S 0.641 S 0.491 S 0.688 439 G R 0.506 G 0.415 T 0.509 440 S R 0.545 U 0.481 S 0.598 441 N R 0.582 R 0.509 S 0.606 442 I H 0.814 A 0.836 H 0.872 443 A H 0.863 A 0.842 H 0.937 444 G H 0.852 A 0.828 H 0.864 445 F H 0.869 A 0.864 H 0.896 446 L H 0.896 A 0.881 H 0.910 447 K H 0.876 A 0.898 H 0.925 448 V H 0.906 A 0.937 H 0.971 449 A H 0.945 A 0.969 H 0.986 450 D H 0.963 A 0.983 H 0.998 451 T H 0.736 A 0.686 H 0.996 452 M H 0.739 A 1.000 H 1.000 453 I H 0.969 A 0.962 H 0.979 454 A H 0.991 A 1.000 H 1.000 455 Q H 0.686 A 0.667 H 1.000 456 G R 0.987 T 0.600 T 1.000 457 I R 0.975 R 0.600 S 1.000 458 I R 0.874 G 0.000 T 0.000 //END