# 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 1.000 H 1.000 2 D R 0.681 A 0.636 H 0.700 3 T H 0.982 A 1.000 H 1.000 4 K H 0.993 A 1.000 H 1.000 5 L H 1.000 A 1.000 H 1.000 6 Q H 0.983 A 1.000 H 1.000 7 T H 0.989 A 1.000 H 1.000 8 K H 0.975 A 0.930 H 0.992 9 L H 0.918 A 0.959 H 0.977 10 T H 0.773 A 0.896 H 0.923 11 L H 0.676 A 0.796 H 0.872 12 L R 0.714 R 0.420 S 0.686 13 P R 0.783 R 0.627 S 0.726 14 E R 0.860 V 0.353 S 0.574 15 S R 0.938 S 0.529 S 0.945 16 P R 0.940 R 0.865 S 0.946 17 G R 0.573 S 0.404 S 0.582 18 C S 0.705 S 0.647 S 0.810 19 Y S 0.730 S 0.620 S 0.789 20 I S 0.789 S 0.687 S 0.887 21 Y S 0.735 S 0.521 S 0.959 22 K S 0.669 S 0.729 S 0.815 23 D R 0.746 S 0.596 S 0.921 24 E R 0.809 A 0.826 H 0.882 25 N R 0.880 K 0.468 H 0.848 26 N R 0.931 T 0.894 T 0.921 27 E R 0.686 R 0.625 S 0.995 28 I S 0.951 R 0.816 S 0.977 29 L S 0.984 A 0.367 H 0.749 30 Y S 0.984 S 0.880 S 1.000 31 I S 0.860 S 0.875 S 0.941 32 G S 0.735 S 0.583 S 0.797 33 K S 0.669 S 0.625 S 0.726 34 S S 0.644 S 0.469 S 0.626 35 K R 0.651 A 0.860 H 0.892 36 C R 0.565 S 0.529 S 0.641 37 L H 0.907 A 0.922 H 0.945 38 K H 0.905 A 0.940 H 0.961 39 N H 0.938 A 0.941 H 0.962 40 R H 0.891 A 0.980 H 0.996 41 V H 0.894 A 0.920 H 0.944 42 K H 0.889 A 0.920 H 0.961 43 S H 0.805 A 0.776 H 0.890 44 Y H 0.768 A 0.766 H 0.829 45 F H 0.603 A 0.565 H 0.676 46 H R 0.593 K 0.295 H 0.680 47 S R 0.764 S 0.286 S 0.644 48 K R 0.699 A 0.475 H 0.625 49 Q R 0.650 S 0.488 S 0.614 50 I R 0.817 K 0.268 H 0.572 51 G R 0.758 T 0.415 T 0.635 52 K H 0.639 A 0.605 H 0.692 53 T H 0.714 A 0.651 H 0.712 54 A H 0.826 A 0.837 H 0.872 55 R H 0.843 A 0.826 H 0.863 56 L H 0.850 A 0.875 H 0.905 57 V H 0.883 A 0.833 H 0.869 58 R H 0.850 A 0.875 H 0.905 59 Q H 0.789 A 0.854 H 0.905 60 I H 0.588 A 0.469 H 0.591 61 R H 0.563 A 0.510 H 0.872 62 D H 0.556 A 0.460 H 0.582 63 L S 0.524 S 0.490 S 0.732 64 E S 0.563 S 0.479 S 0.618 65 L S 0.821 S 0.755 S 0.854 66 I S 0.886 S 0.792 S 0.905 67 I S 0.902 S 0.490 S 0.942 68 T S 0.660 S 0.755 S 0.925 69 T R 0.834 A 0.660 H 0.811 70 S R 0.757 S 0.408 S 0.644 71 E H 0.699 A 0.700 H 0.789 72 K H 0.876 A 0.900 H 0.961 73 E H 0.891 A 0.902 H 0.962 74 A H 0.860 A 0.843 H 0.877 75 L H 0.814 A 0.804 H 0.844 76 L H 0.783 A 0.765 H 0.810 77 L H 0.798 A 0.784 H 0.827 78 E H 0.845 A 0.824 H 0.861 79 M H 0.845 A 0.824 H 0.894 80 I H 0.845 A 0.804 H 0.861 81 L H 0.876 A 0.882 H 0.945 82 I H 0.879 A 0.942 H 0.963 83 Q H 0.863 A 0.885 H 0.930 84 K H 0.829 A 0.863 H 0.928 85 Y H 0.650 K 0.549 H 0.776 86 Q R 0.923 T 0.451 T 0.540 87 P R 0.751 R 0.647 S 0.709 88 P R 0.689 A 0.780 H 0.858 89 F R 0.580 S 0.412 S 0.759 90 N S 0.580 S 0.373 S 0.641 91 I S 0.588 S 0.694 S 0.797 92 Q S 0.816 S 0.541 S 0.850 93 L S 0.716 S 0.447 S 0.831 94 K R 0.745 R 0.447 S 0.605 95 E R 0.817 R 0.350 S 0.647 96 G R 0.875 T 0.341 T 0.551 97 T R 0.758 R 0.439 S 0.698 98 S R 0.602 S 0.463 S 0.845 99 Y R 0.621 S 0.256 S 0.812 100 P R 0.583 R 0.395 S 0.672 101 Y S 0.677 S 0.465 S 0.652 102 I S 0.789 S 0.744 S 0.852 103 K S 0.714 S 0.535 S 0.792 104 I S 0.677 S 0.571 S 0.787 105 T R 0.554 S 0.561 S 0.719 106 N R 0.733 A 0.452 H 0.705 107 E R 0.726 A 0.452 H 0.664 108 K R 0.783 A 0.500 H 0.767 109 N R 0.919 U 0.429 S 0.910 110 P R 0.821 A 0.533 H 0.630 111 H R 0.576 A 0.400 H 0.630 112 I S 0.576 S 0.511 S 0.821 113 E S 0.716 S 0.533 S 0.783 114 V S 0.770 S 0.628 S 0.772 115 V S 0.592 A 0.500 H 0.623 116 F H 0.573 A 0.619 H 0.685 117 E H 0.650 A 0.571 H 0.664 118 A H 0.669 A 0.619 H 0.726 119 K H 0.621 A 0.659 H 0.719 120 Q H 0.511 A 0.525 H 0.625 121 D R 0.751 K 0.263 H 0.605 122 G R 0.943 T 0.457 T 0.619 123 A R 0.847 R 0.270 S 0.454 124 H R 0.563 A 0.415 H 0.656 125 Y R 0.516 S 0.452 S 0.726 126 F R 0.535 S 0.333 S 0.644 127 G R 0.817 R 0.439 S 0.761 128 P R 0.802 R 0.452 S 0.685 129 Y R 0.875 R 0.463 S 0.949 130 P R 0.777 R 0.415 S 0.593 131 G R 0.770 R 0.286 S 0.603 132 R H 0.583 A 0.605 H 0.672 133 Y H 0.621 A 0.605 H 0.712 134 S H 0.677 A 0.628 H 0.752 135 A H 0.789 A 0.762 H 0.828 136 R H 0.789 A 0.762 H 0.869 137 Q H 0.860 A 0.833 H 0.931 138 T H 0.849 A 0.818 H 0.895 139 V H 0.891 A 0.933 H 0.955 140 D H 0.909 A 0.889 H 0.974 141 L H 0.940 A 0.953 H 0.992 142 I H 0.975 A 0.977 H 0.992 143 Q H 0.938 A 0.977 H 0.992 144 K H 0.901 A 0.905 H 0.971 145 L H 0.789 A 0.698 H 0.892 146 F H 0.658 A 0.548 H 0.685 147 P H 0.602 A 0.571 H 0.685 148 L H 0.621 A 0.628 H 0.712 149 C H 0.631 A 0.690 H 0.767 150 R R 0.565 S 0.605 S 0.732 151 C R 0.611 R 0.372 S 0.652 152 D R 0.764 A 0.415 H 0.593 153 G R 0.758 K 0.341 H 0.698 154 K R 0.875 R 0.585 S 0.824 155 P R 0.934 R 0.732 S 0.824 156 G R 0.957 T 0.300 T 0.496 157 R R 0.650 R 0.405 S 0.746 158 P S 0.648 R 0.636 S 0.895 159 C S 0.758 S 0.705 S 0.817 160 L S 0.776 S 0.659 S 0.739 161 Y S 0.721 S 0.477 S 0.680 162 Y S 0.594 S 0.432 S 0.641 163 H S 0.594 S 0.467 S 0.573 164 L H 0.593 A 0.568 H 0.680 165 G R 0.575 A 0.455 H 0.563 166 L S 0.538 S 0.568 S 0.680 167 C S 0.520 R 0.432 S 0.582 168 L R 0.520 A 0.591 H 0.719 169 G R 0.630 S 0.250 S 0.641 170 P R 0.648 R 0.455 S 0.582 171 C R 0.575 A 0.349 H 0.532 172 L H 0.565 A 0.325 H 0.582 173 R H 0.621 A 0.634 H 0.949 174 E H 0.592 A 0.643 H 0.890 175 I R 0.714 S 0.628 S 0.972 176 D R 0.944 R 0.933 S 0.993 177 P H 0.891 A 0.978 H 1.000 178 A H 0.909 A 0.951 H 1.000 179 V H 0.953 A 0.902 H 0.991 180 Y H 0.891 A 0.976 H 1.000 181 K H 0.926 A 1.000 H 1.000 182 A H 0.993 A 1.000 H 1.000 183 Q H 0.992 A 1.000 H 1.000 184 I H 0.974 A 0.976 H 1.000 185 H H 0.955 A 0.976 H 0.992 186 K H 0.917 A 0.927 H 0.991 187 I H 0.955 A 0.952 H 1.000 188 S H 0.860 A 0.952 H 0.971 189 R H 0.764 A 0.905 H 0.951 190 F H 0.707 A 0.762 H 0.890 191 L H 0.658 A 0.738 H 0.828 192 E R 0.714 K 0.439 H 0.740 193 G R 0.895 T 0.610 T 0.719 194 D R 0.821 R 0.286 S 0.582 195 V H 0.666 A 0.674 H 0.732 196 K H 0.812 A 0.886 H 0.915 197 P H 0.885 A 0.864 H 0.895 198 V H 0.922 A 0.864 H 0.934 199 K H 0.975 A 0.977 H 0.992 200 K H 0.974 A 0.976 H 1.000 201 K H 0.973 A 0.976 H 1.000 202 I H 0.929 A 0.949 H 1.000 203 Q H 0.968 A 0.974 H 0.990 204 A H 0.967 A 1.000 H 1.000 205 I H 0.921 A 0.972 H 1.000 206 M H 0.985 A 0.971 H 1.000 207 Q H 0.982 A 1.000 H 1.000 208 E H 0.982 A 1.000 H 1.000 209 A H 0.908 A 0.935 H 0.957 210 T H 0.930 A 0.967 H 0.984 211 D H 0.904 A 0.968 H 0.985 212 K H 0.828 A 0.903 H 0.985 213 L H 0.675 A 0.645 H 0.735 214 E H 0.624 A 0.581 H 0.652 215 F H 0.728 A 0.719 H 0.770 216 E H 0.788 A 0.806 H 0.869 217 R H 0.855 A 0.889 H 0.917 218 A H 0.877 A 0.889 H 1.000 219 A H 0.899 A 0.917 H 0.941 220 E H 0.921 A 0.917 H 0.941 221 Q H 0.899 A 0.861 H 0.965 222 R H 0.855 A 0.944 H 0.965 223 D H 0.859 A 0.919 H 0.989 224 K H 0.884 A 0.868 H 0.990 225 L H 0.827 A 0.789 H 0.877 226 H H 0.851 A 0.950 H 0.969 227 A H 0.856 A 0.805 H 0.866 228 I H 0.821 A 0.786 H 0.849 229 N H 0.817 A 0.878 H 0.908 230 E H 0.745 A 0.714 H 0.787 231 T H 0.751 A 0.744 H 0.812 232 I H 0.791 A 0.789 H 0.854 233 E H 0.765 A 0.821 H 0.858 234 K H 0.731 A 0.842 H 0.899 235 Q H 0.582 A 0.513 H 0.682 236 H R 0.491 R 0.410 S 0.571 237 I S 0.591 S 0.436 S 0.726 238 I S 0.691 S 0.500 S 0.776 239 F S 0.611 S 0.450 S 0.733 240 P R 0.592 A 0.439 H 0.572 241 G R 0.726 S 0.390 S 0.635 242 L R 0.602 R 0.488 S 0.614 243 K R 0.535 R 0.357 S 0.644 244 N R 0.650 A 0.262 H 0.582 245 R R 0.554 A 0.595 H 0.726 246 D R 0.538 A 0.455 H 0.641 247 I S 0.575 A 0.477 H 0.582 248 I S 0.559 A 0.356 H 0.573 249 G S 0.559 S 0.422 S 0.535 250 C S 0.629 S 0.578 S 0.745 251 Y S 0.611 S 0.400 S 0.687 252 E H 0.520 A 0.455 H 0.700 253 Q R 0.684 A 0.386 H 0.641 254 D R 0.849 K 0.295 H 0.661 255 N R 0.904 T 0.682 T 0.797 256 Y R 0.703 S 0.409 S 0.602 257 L S 0.714 S 0.442 S 0.772 258 S S 0.807 S 0.651 S 0.852 259 V S 0.794 S 0.810 S 0.869 260 F S 0.849 S 0.545 S 0.817 261 V S 0.909 S 0.800 S 0.936 262 F S 0.891 S 0.844 S 0.898 263 F S 0.891 S 0.756 S 0.917 264 V S 0.751 S 0.600 S 0.783 265 R S 0.714 S 0.310 S 0.644 266 N R 0.726 T 0.286 T 0.459 267 G R 0.764 T 0.548 T 0.705 268 A S 0.535 S 0.429 S 0.726 269 I S 0.565 R 0.410 S 0.660 270 N S 0.571 S 0.625 S 0.690 271 G R 0.671 R 0.625 S 0.711 272 R R 0.565 S 0.538 S 0.770 273 K S 0.554 S 0.500 S 0.623 274 W S 0.538 S 0.409 S 0.582 275 H S 0.594 S 0.444 S 0.592 276 V S 0.611 S 0.489 S 0.611 277 F S 0.576 S 0.600 S 0.821 278 Q R 0.594 R 0.578 S 0.783 279 V R 0.611 S 0.500 S 0.680 280 E R 0.739 R 0.227 S 0.641 281 K R 0.867 A 0.227 H 0.543 282 S R 0.922 S 0.605 S 0.832 283 L R 0.789 A 0.628 H 0.712 284 Q H 0.583 A 0.698 H 0.792 285 E H 0.733 A 0.721 H 0.872 286 D H 0.770 A 0.721 H 0.812 287 L H 0.807 A 0.814 H 0.912 288 A H 0.849 A 0.841 H 0.876 289 H H 0.856 A 0.844 H 0.898 290 F H 0.874 A 0.778 H 0.898 291 I H 0.891 A 0.909 H 0.934 292 N H 0.891 A 0.889 H 0.936 293 Q H 0.874 A 0.889 H 0.955 294 F H 0.874 A 0.711 H 0.898 295 Y H 0.677 A 0.605 H 0.672 296 E H 0.554 A 0.548 H 0.644 297 D R 0.543 U 0.683 S 0.782 298 P H 0.707 A 0.610 H 0.929 299 N R 0.802 A 0.476 H 0.644 300 N R 0.688 A 0.262 H 0.562 301 I R 0.621 S 0.488 S 0.698 302 Q R 0.758 R 0.425 S 0.733 303 P R 0.751 R 0.900 S 0.926 304 K R 0.551 A 0.575 H 0.905 305 E S 0.738 S 0.625 S 0.776 306 L S 0.856 S 0.829 S 0.866 307 L S 0.875 S 0.488 S 0.866 308 I S 0.738 S 0.756 S 1.000 309 A S 0.699 R 0.683 S 0.845 310 E R 0.936 A 0.450 H 0.561 311 K R 0.898 K 0.452 H 0.541 312 L R 0.882 R 0.488 S 0.952 313 D R 0.958 S 0.545 S 0.934 314 K H 0.885 A 0.932 H 0.954 315 L H 0.940 A 0.955 H 0.973 316 S H 0.944 A 0.955 H 0.993 317 L H 0.958 A 0.955 H 0.973 318 A H 0.958 A 0.977 H 0.993 319 E H 0.958 A 1.000 H 1.000 320 P H 0.885 A 0.977 H 0.993 321 L H 0.739 A 0.651 H 0.792 322 R R 0.751 T 0.512 T 0.592 323 K R 0.721 S 0.864 S 0.934 324 A S 0.758 R 0.523 S 0.993 325 C S 0.958 S 0.886 S 0.993 326 V S 0.863 S 0.744 S 0.932 327 F S 0.621 S 0.488 S 0.866 328 P R 0.786 R 0.769 S 0.880 329 Q R 0.811 A 0.487 H 0.615 330 K R 0.888 R 0.410 S 0.660 331 G R 0.863 T 0.622 T 0.757 332 G R 0.751 R 0.324 S 0.640 333 K R 0.536 R 0.378 S 0.571 334 K H 0.611 A 0.658 H 0.718 335 K H 0.751 A 0.750 H 0.797 336 Q H 0.879 A 0.902 H 0.929 337 I H 0.919 A 0.907 H 0.932 338 N H 0.957 A 0.976 H 0.992 339 L H 0.994 A 1.000 H 1.000 340 A H 0.977 A 0.977 H 0.993 341 N H 0.891 A 0.953 H 0.972 342 E H 0.922 A 0.977 H 1.000 343 N H 0.812 A 0.795 H 0.915 344 A H 0.856 A 0.911 H 0.955 345 K H 0.856 A 0.889 H 0.936 346 S H 0.786 A 0.800 H 0.840 347 T H 0.769 A 0.756 H 0.802 348 Y H 0.926 A 0.933 H 0.955 349 I H 0.926 A 0.933 H 0.993 350 A H 0.856 A 0.909 H 0.973 351 Y H 0.794 A 0.795 H 0.876 352 A H 0.769 A 0.682 H 0.817 353 K H 0.681 A 0.682 H 0.739 354 M H 0.695 A 0.674 H 0.792 355 K H 0.719 A 0.805 H 0.887 356 E H 0.622 A 0.538 H 0.660 357 Y H 0.527 A 0.526 H 0.673 358 D H 0.551 A 0.455 H 0.569 359 F H 0.626 A 0.786 H 0.859 360 E H 0.611 A 0.826 H 0.900 361 N H 0.576 A 0.611 H 0.821 362 Q H 0.611 A 0.533 H 0.611 363 L H 0.751 A 0.818 H 0.856 364 K R 0.587 A 0.750 H 0.797 365 N R 0.695 A 0.800 H 1.000 366 S R 0.874 G 0.000 T 0.000 //END