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SeRenDIP PPI interface prediction Resultsnew job |
In the table below you can see the example P0DTC9 — Name: SARS-CoV-2 Nucleoprotein — UniProtKB: NCAP_SARS2 . The table contains sequence position, prediction scores and classification based on the default cut-off of 0.5 (above is predicted interaction).
Download raw dataYou can download the output file and the full feature table.
Please cite:
- Qingzhen Hou1, Reza Haydarlou, Bas Stringer, Katharina Waury, Henriette Capel, Sanne Abeln, Jaap Heringa, K. Anton Feenstra SeRenDIP-CE: Sequence-based Interface Prediction for Conformational Epitopes Bioinformatics advance 11 May 2021, doi: 10.1093/bioinformatics/btab321 1Department of Biostatistics, School of Public Health & National institute of health data science of China; Shandong 250002, P. R. China
- Qingzhen Hou1, Paul De Geest, Christian Griffioen, Sanne Abeln, Jaap Heringa, K. Anton Feenstra. SeRenDIP: remastered alignment profiles for fast and accurate predictions of PPI interface positions. Bioinformatics 35, pp 4794–4796, 2019, doi: 10.1093/bioinformatics/btz428
13BIO-BioInfo – BioModeling, BioInformatics & BioProcesses, Université Libre de Bruxelles- Qingzhen Hou, Paul De Geest, Wim F. Vranken, Jaap Heringa and K. Anton Feenstra
Seeing the Trees through the Forest: Sequence-based Homo- and Heteromeric Protein-protein Interaction sites prediction using Random Forest. Bioinformatics, 2017, doi: 10.1093/bioinformatics/btx005
Color better than threshold:
Sequence Combined Prediction Pos AA Model Pred x of 411 rows match filter(s) 5 G 0.592 I 6 P 0.618 I 7 Q 0.576 I 8 N 0.584 I 9 Q 0.598 I 10 R 0.582 I 11 N 0.574 I 12 A 0.518 I 13 P 0.548 I 14 R 0.560 I 15 I 0.558 I 16 T 0.560 I 17 F 0.548 I 18 G 0.592 I 19 G 0.558 I 20 P 0.616 I 21 S 0.604 I 22 D 0.644 I 23 S 0.640 I 24 T 0.578 I 25 G 0.608 I 26 S 0.532 I 27 N 0.560 I 28 Q 0.530 I 29 N 0.568 I 30 G 0.592 I 31 E 0.496 NI 32 R 0.578 I 33 S 0.516 I 34 G 0.600 I 35 A 0.580 I 36 R 0.580 I 37 S 0.588 I 38 K 0.564 I 39 Q 0.634 I 40 R 0.608 I 41 R 0.588 I 42 P 0.580 I 43 Q 0.580 I 44 G 0.578 I 45 L 0.578 I 46 P 0.568 I 47 N 0.578 I 48 N 0.552 I 49 T 0.516 I 50 A 0.566 I 51 S 0.610 I 52 W 0.630 I 53 F 0.700 I 54 T 0.738 I 55 A 0.650 I 56 L 0.530 I 57 T 0.538 I 58 Q 0.566 I 59 H 0.498 NI 60 G 0.516 I 61 K 0.488 NI 62 E 0.562 I 63 D 0.570 I 64 L 0.552 I 65 K 0.510 I 66 F 0.538 I 67 P 0.558 I 68 R 0.560 I 69 G 0.532 I 70 Q 0.566 I 71 G 0.582 I 72 V 0.558 I 73 P 0.560 I 74 I 0.536 I 75 N 0.580 I 76 T 0.462 NI 77 N 0.522 I 78 S 0.538 I 79 S 0.558 I 80 P 0.534 I 81 D 0.524 I 82 D 0.562 I 83 Q 0.538 I 84 I 0.560 I 85 G 0.538 I 86 Y 0.540 I 87 Y 0.504 I 88 R 0.542 I 89 R 0.510 I 90 A 0.506 I 91 T 0.516 I 92 R 0.482 NI 93 R 0.524 I 94 I 0.494 NI 95 R 0.532 I 96 G 0.490 NI 97 G 0.480 NI 98 D 0.458 NI 99 G 0.448 NI 100 K 0.496 NI 101 M 0.476 NI 102 K 0.452 NI 103 D 0.520 I 104 L 0.460 NI 105 S 0.444 NI 106 P 0.466 NI 107 R 0.396 NI 108 W 0.370 NI 109 Y 0.386 NI 110 F 0.204 NI 111 Y 0.310 NI 112 Y 0.344 NI 113 L 0.404 NI 114 G 0.390 NI 115 T 0.508 I 116 G 0.534 I 117 P 0.658 I 118 E 0.548 I 119 A 0.584 I 120 G 0.450 NI 121 L 0.452 NI 122 P 0.418 NI 123 Y 0.400 NI 124 G 0.380 NI 125 A 0.378 NI 126 N 0.356 NI 127 K 0.426 NI 128 D 0.330 NI 129 G 0.324 NI 130 I 0.296 NI 131 I 0.294 NI 132 W 0.334 NI 133 V 0.270 NI 134 A 0.412 NI 135 T 0.460 NI 136 E 0.480 NI 137 G 0.502 I 138 A 0.492 NI 139 L 0.486 NI 140 N 0.442 NI 141 T 0.470 NI 142 P 0.548 I 143 K 0.460 NI 144 D 0.578 I 145 H 0.588 I 146 I 0.576 I 147 G 0.544 I 148 T 0.544 I 149 R 0.516 I 150 N 0.504 I 151 P 0.458 NI 152 A 0.408 NI 153 N 0.452 NI 154 N 0.426 NI 155 A 0.498 NI 156 A 0.486 NI 157 I 0.486 NI 158 V 0.498 NI 159 L 0.536 I 160 Q 0.524 I 161 L 0.478 NI 162 P 0.468 NI 163 Q 0.480 NI 164 G 0.414 NI 165 T 0.508 I 166 T 0.504 I 167 L 0.472 NI 168 P 0.478 NI 169 K 0.548 I 170 G 0.516 I 171 F 0.540 I 172 Y 0.534 I 173 A 0.566 I 174 E 0.594 I 175 G 0.496 NI 176 S 0.556 I 177 R 0.560 I 178 G 0.564 I 179 G 0.608 I 180 S 0.664 I 181 Q 0.624 I 182 A 0.600 I 183 S 0.580 I 184 S 0.576 I 185 R 0.602 I 186 S 0.662 I 187 S 0.612 I 188 S 0.632 I 189 R 0.632 I 190 S 0.630 I 191 R 0.586 I 192 N 0.574 I 193 S 0.598 I 194 S 0.642 I 195 R 0.636 I 196 N 0.552 I 197 S 0.626 I 198 T 0.660 I 199 P 0.620 I 200 G 0.628 I 201 S 0.620 I 202 S 0.624 I 203 R 0.604 I 204 G 0.568 I 205 T 0.564 I 206 S 0.568 I 207 P 0.578 I 208 A 0.572 I 209 R 0.538 I 210 M 0.576 I 211 A 0.552 I 212 G 0.580 I 213 N 0.502 I 214 G 0.528 I 215 G 0.526 I 216 D 0.504 I 217 A 0.478 NI 218 A 0.544 I 219 L 0.528 I 220 A 0.534 I 221 L 0.494 NI 222 L 0.512 I 223 L 0.552 I 224 L 0.488 NI 225 D 0.530 I 226 R 0.540 I 227 L 0.548 I 228 N 0.484 NI 229 Q 0.474 NI 230 L 0.542 I 231 E 0.514 I 232 S 0.460 NI 233 K 0.488 NI 234 M 0.556 I 235 S 0.494 NI 236 G 0.458 NI 237 K 0.488 NI 238 G 0.466 NI 239 Q 0.498 NI 240 Q 0.514 I 241 Q 0.588 I 242 Q 0.576 I 243 G 0.578 I 244 Q 0.534 I 245 T 0.554 I 246 V 0.550 I 247 T 0.540 I 248 K 0.468 NI 249 K 0.488 NI 250 S 0.440 NI 251 A 0.382 NI 252 A 0.328 NI 253 E 0.386 NI 254 A 0.460 NI 255 S 0.402 NI 256 K 0.432 NI 257 K 0.458 NI 258 P 0.514 I 259 R 0.524 I 260 Q 0.542 I 261 K 0.560 I 262 R 0.566 I 263 T 0.524 I 264 A 0.470 NI 265 T 0.450 NI 266 K 0.450 NI 267 A 0.436 NI 268 Y 0.462 NI 269 N 0.482 NI 270 V 0.494 NI 271 T 0.534 I 272 Q 0.584 I 273 A 0.544 I 274 F 0.624 I 275 G 0.508 I 276 R 0.554 I 277 R 0.518 I 278 G 0.526 I 279 P 0.498 NI 280 E 0.456 NI 281 Q 0.444 NI 282 T 0.514 I 283 Q 0.504 I 284 G 0.540 I 285 N 0.544 I 286 F 0.562 I 287 G 0.572 I 288 D 0.508 I 289 Q 0.478 NI 290 E 0.442 NI 291 L 0.490 NI 292 I 0.464 NI 293 R 0.426 NI 294 Q 0.468 NI 295 G 0.504 I 296 T 0.494 NI 297 D 0.428 NI 298 Y 0.468 NI 299 K 0.522 I 300 H 0.564 I 301 W 0.514 I 302 P 0.596 I 303 Q 0.570 I 304 I 0.578 I 305 A 0.580 I 306 Q 0.690 I 307 F 0.658 I 308 A 0.666 I 309 P 0.686 I 310 S 0.672 I 311 A 0.708 I 312 S 0.652 I 313 A 0.622 I 314 F 0.630 I 315 F 0.594 I 316 G 0.620 I 317 M 0.600 I 318 S 0.558 I 319 R 0.580 I 320 I 0.546 I 321 G 0.552 I 322 M 0.534 I 323 E 0.486 NI 324 V 0.452 NI 325 T 0.404 NI 326 P 0.352 NI 327 S 0.394 NI 328 G 0.404 NI 329 T 0.374 NI 330 W 0.410 NI 331 L 0.410 NI 332 T 0.478 NI 333 Y 0.500 NI 334 T 0.538 I 335 G 0.464 NI 336 A 0.558 I 337 I 0.468 NI 338 K 0.432 NI 339 L 0.442 NI 340 D 0.420 NI 341 D 0.360 NI 342 K 0.366 NI 343 D 0.386 NI 344 P 0.404 NI 345 N 0.412 NI 346 F 0.358 NI 347 K 0.402 NI 348 D 0.414 NI 349 Q 0.378 NI 350 V 0.464 NI 351 I 0.378 NI 352 L 0.444 NI 353 L 0.330 NI 354 N 0.506 I 355 K 0.488 NI 356 H 0.546 I 357 I 0.484 NI 358 D 0.582 I 359 A 0.564 I 360 Y 0.552 I 361 K 0.560 I 362 T 0.514 I 363 F 0.506 I 364 P 0.518 I 365 P 0.504 I 366 T 0.470 NI 367 E 0.496 NI 368 P 0.522 I 369 K 0.508 I 370 K 0.454 NI 371 D 0.480 NI 372 K 0.438 NI 373 K 0.414 NI 374 K 0.432 NI 375 K 0.406 NI 376 A 0.440 NI 377 D 0.386 NI 378 E 0.432 NI 379 T 0.470 NI 380 Q 0.486 NI 381 A 0.482 NI 382 L 0.534 I 383 P 0.442 NI 384 Q 0.514 I 385 R 0.502 I 386 Q 0.494 NI 387 K 0.476 NI 388 K 0.496 NI 389 Q 0.480 NI 390 Q 0.558 I 391 T 0.578 I 392 V 0.570 I 393 T 0.586 I 394 L 0.544 I 395 L 0.588 I 396 P 0.562 I 397 A 0.522 I 398 A 0.534 I 399 D 0.534 I 400 L 0.532 I 401 D 0.414 NI 402 D 0.448 NI 403 F 0.542 I 404 S 0.486 NI 405 K 0.330 NI 406 Q 0.434 NI 407 L 0.446 NI 408 Q 0.470 NI 409 Q 0.434 NI 410 S 0.526 I 411 M 0.586 I 412 S 0.516 I 413 S 0.528 I 414 A 0.556 I 415 D 0.584 I
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