| Chain sequence(s) |
A: MDDRFNDVNTINKKQFTEEEFSRLINSMLKEYIEDNKKDKHPTQKTTPKPTTPKQINDGTSDKTSDTHTIKRTTPKPTTPKQINDGTSDKTSDTHTIKRTTPKPTTPKQINDGTSDKCKSIACIFLINKPKVPLWIVNPLYYMVEKFVQIMGYLLEDDDTLELNLPKYYYDKSIAEAAAKEAAAKAEPRIQKEYYYNLHENNSQANHNKFHEMPEYDDQLPDFPHKQLEEEQCPFCKLSEVLNSGSVVPLWLVCPICYVLELFPRAISYYFNAEAAAKEAAAKAFDASNFKDFSSIASASSSWQNQSGSTMIIQVDSFGNVSGQYVNRAQGTGCQNSPYPLTGRVNGTFIAFSVGWNNSTENCNSATGWTGYAQVNGNNTEIVTSWNLAYEGGSGPAIEQGQDTFQYVPTTENKSLLKDTHHHHHH
input PDB |
| Selected Chain(s) | A |
| Distance of aggregation | 10 Å |
| FoldX usage | Yes |
| pH calculations | Yes |
| alphaCutter usage | No |
| Dynamic mode | No |
| Automated mutations | No |
| Downloads | Download all the data |
| Simulation log |
[INFO] Logger: Verbosity set to: 2 - [INFO] (00:00:03)
[WARNING] runJob: Working directory already exists (possibly overwriting previous results -ow
to prevent this behavior) (00:00:03)
[INFO] runJob: Starting aggrescan3d job on: input.pdb with A chain(s) selected (00:00:03)
[INFO] runJob: Creating pdb object from: input.pdb (00:00:03)
[INFO] PDB-Info: The input structure is partially or entirely disordered. Average score is
recommended for pH analysis. (00:00:05)
[INFO] FoldX: Starting FoldX energy minimization (00:00:05)
[INFO] Analysis: Starting Aggrescan4D on folded.pdb (00:09:28)
[INFO] agg3D: Running pKa-ANI on
/STORAGE/DATA/lcbio/aggreskan/74a68af12b7cee4/tmp/folded.pdb (00:09:28)
[INFO] Main: Simulation completed successfully. (00:14:40)
|
The table below lists A4D score for protein residues. Residues with A4D score > 0.0000 are marked by yellow rows.
| residue index | residue name | chain | Aggrescan4D score | mutation |
|---|---|---|---|---|
| 1 | M | A | 0.2375 | |
| 2 | D | A | -1.3211 | |
| 3 | D | A | -2.6998 | |
| 4 | R | A | -2.4990 | |
| 5 | F | A | -0.4540 | |
| 6 | N | A | -2.1111 | |
| 7 | D | A | -1.8276 | |
| 8 | V | A | 0.4572 | |
| 9 | N | A | -0.8514 | |
| 10 | T | A | -0.4624 | |
| 11 | I | A | 0.4311 | |
| 12 | N | A | -1.8523 | |
| 13 | K | A | -2.9266 | |
| 14 | K | A | -2.8645 | |
| 15 | Q | A | -2.1338 | |
| 16 | F | A | -0.3189 | |
| 17 | T | A | -1.3981 | |
| 18 | E | A | -2.3321 | |
| 19 | E | A | -2.6102 | |
| 20 | E | A | -1.2822 | |
| 21 | F | A | 0.2731 | |
| 22 | S | A | -0.7823 | |
| 23 | R | A | -1.6997 | |
| 24 | L | A | 0.3642 | |
| 25 | I | A | 0.8676 | |
| 26 | N | A | -0.9673 | |
| 27 | S | A | -0.7541 | |
| 28 | M | A | -0.2669 | |
| 29 | L | A | -0.6642 | |
| 30 | K | A | -2.3208 | |
| 31 | E | A | -2.8886 | |
| 32 | Y | A | -1.2232 | |
| 33 | I | A | -1.5847 | |
| 34 | E | A | -4.0575 | |
| 35 | D | A | -4.6549 | |
| 36 | N | A | -4.2284 | |
| 37 | K | A | -5.0143 | |
| 38 | K | A | -5.2926 | |
| 39 | D | A | -5.1728 | |
| 40 | K | A | -4.6000 | |
| 41 | H | A | -3.5063 | |
| 42 | P | A | -2.3282 | |
| 43 | T | A | -1.7005 | |
| 44 | Q | A | -2.3211 | |
| 45 | K | A | -2.4353 | |
| 46 | T | A | -1.5632 | |
| 47 | T | A | -1.3455 | |
| 48 | P | A | -1.4196 | |
| 49 | K | A | -2.0043 | |
| 50 | P | A | -1.2416 | |
| 51 | T | A | -0.9765 | |
| 52 | T | A | -1.1201 | |
| 53 | P | A | -1.2468 | |
| 54 | K | A | -2.0533 | |
| 55 | Q | A | -1.7228 | |
| 56 | I | A | -0.1807 | |
| 57 | N | A | -1.8551 | |
| 58 | D | A | -2.3316 | |
| 59 | G | A | -1.7615 | |
| 60 | T | A | -1.6491 | |
| 61 | S | A | -1.9333 | |
| 62 | D | A | -2.8487 | |
| 63 | K | A | -2.9439 | |
| 64 | T | A | -2.0082 | |
| 65 | S | A | -1.9774 | |
| 66 | D | A | -2.4542 | |
| 67 | T | A | -1.2905 | |
| 68 | H | A | -1.3107 | |
| 69 | T | A | -0.6021 | |
| 70 | I | A | 0.3698 | |
| 71 | K | A | -1.8009 | |
| 72 | R | A | -2.2425 | |
| 73 | T | A | -1.5203 | |
| 74 | T | A | -1.4264 | |
| 75 | P | A | -1.4453 | |
| 76 | K | A | -2.0015 | |
| 77 | P | A | -1.2475 | |
| 78 | T | A | -0.9588 | |
| 79 | T | A | -1.0943 | |
| 80 | P | A | -1.2154 | |
| 81 | K | A | -2.1051 | |
| 82 | Q | A | -1.6804 | |
| 83 | I | A | -0.2601 | |
| 84 | N | A | -1.8460 | |
| 85 | D | A | -2.2446 | |
| 86 | G | A | -1.6840 | |
| 87 | T | A | -1.7636 | |
| 88 | S | A | -1.9967 | |
| 89 | D | A | -2.8571 | |
| 90 | K | A | -2.9669 | |
| 91 | T | A | -2.0412 | |
| 92 | S | A | -2.0391 | |
| 93 | D | A | -2.4725 | |
| 94 | T | A | -1.2671 | |
| 95 | H | A | -1.3062 | |
| 96 | T | A | -0.6026 | |
| 97 | I | A | 0.3245 | |
| 98 | K | A | -1.8064 | |
| 99 | R | A | -2.2195 | |
| 100 | T | A | -1.5376 | |
| 101 | T | A | -1.4092 | |
| 102 | P | A | -1.4667 | |
| 103 | K | A | -2.0038 | |
| 104 | P | A | -1.2468 | |
| 105 | T | A | -1.0362 | |
| 106 | T | A | -1.1109 | |
| 107 | P | A | -1.2258 | |
| 108 | K | A | -2.0694 | |
| 109 | Q | A | -1.6993 | |
| 110 | I | A | -0.2424 | |
| 111 | N | A | -1.8734 | |
| 112 | D | A | -2.3351 | |
| 113 | G | A | -1.7794 | |
| 114 | T | A | -1.7614 | |
| 115 | S | A | -2.0004 | |
| 116 | D | A | -3.0513 | |
| 117 | K | A | -2.9421 | |
| 118 | C | A | -1.0784 | |
| 119 | K | A | -2.0411 | |
| 120 | S | A | -0.1424 | |
| 121 | I | A | 1.4146 | |
| 122 | A | A | 1.5250 | |
| 123 | C | A | 1.2321 | |
| 124 | I | A | 1.7076 | |
| 125 | F | A | 1.7626 | |
| 126 | L | A | 2.3023 | |
| 127 | I | A | 2.1393 | |
| 128 | N | A | -0.4531 | |
| 129 | K | A | -1.2117 | |
| 130 | P | A | -0.8881 | |
| 131 | K | A | -1.5990 | |
| 132 | V | A | 0.9500 | |
| 133 | P | A | 1.3344 | |
| 134 | L | A | 2.3307 | |
| 135 | W | A | 2.3551 | |
| 136 | I | A | 2.3288 | |
| 137 | V | A | 2.0347 | |
| 138 | N | A | 0.7630 | |
| 139 | P | A | 1.0854 | |
| 140 | L | A | 1.4117 | |
| 141 | Y | A | 1.2565 | |
| 142 | Y | A | 1.2121 | |
| 143 | M | A | 0.8284 | |
| 144 | V | A | 0.7600 | |
| 145 | E | A | 0.2388 | |
| 146 | K | A | -0.2311 | |
| 147 | F | A | 0.9227 | |
| 148 | V | A | 0.8328 | |
| 149 | Q | A | 0.2867 | |
| 150 | I | A | 0.9215 | |
| 151 | M | A | 1.3574 | |
| 152 | G | A | 0.8427 | |
| 153 | Y | A | 1.1753 | |
| 154 | L | A | 1.4379 | |
| 155 | L | A | 0.5031 | |
| 156 | E | A | -1.8933 | |
| 157 | D | A | -3.3426 | |
| 158 | D | A | -3.6711 | |
| 159 | D | A | -3.3444 | |
| 160 | T | A | -1.7587 | |
| 161 | L | A | -0.9182 | |
| 162 | E | A | -1.4151 | |
| 163 | L | A | -0.2598 | |
| 164 | N | A | -1.1893 | |
| 165 | L | A | -0.0829 | |
| 166 | P | A | 0.0339 | |
| 167 | K | A | -0.7340 | |
| 168 | Y | A | 0.8131 | |
| 169 | Y | A | 1.3057 | |
| 170 | Y | A | 0.8674 | |
| 171 | D | A | -1.0818 | |
| 172 | K | A | -1.6425 | |
| 173 | S | A | -0.8274 | |
| 174 | I | A | 0.6077 | |
| 175 | A | A | -0.7514 | |
| 176 | E | A | -1.9821 | |
| 177 | A | A | -1.1755 | |
| 178 | A | A | -0.9427 | |
| 179 | A | A | -1.6273 | |
| 180 | K | A | -2.8512 | |
| 181 | E | A | -3.1643 | |
| 182 | A | A | -2.0139 | |
| 183 | A | A | -1.7831 | |
| 184 | A | A | -2.1323 | |
| 185 | K | A | -2.7351 | |
| 186 | A | A | -1.8267 | |
| 187 | E | A | -2.3907 | |
| 188 | P | A | -2.3182 | |
| 189 | R | A | -2.7662 | |
| 190 | I | A | -1.1669 | |
| 191 | Q | A | -1.6271 | |
| 192 | K | A | -2.3705 | |
| 193 | E | A | -1.9143 | |
| 194 | Y | A | 0.1171 | |
| 195 | Y | A | 0.1064 | |
| 196 | Y | A | -0.4614 | |
| 197 | N | A | -1.6362 | |
| 198 | L | A | -1.0733 | |
| 199 | H | A | -2.0867 | |
| 200 | E | A | -2.8216 | |
| 201 | N | A | -3.1780 | |
| 202 | N | A | -3.2361 | |
| 203 | S | A | -2.8707 | |
| 204 | Q | A | -3.1653 | |
| 205 | A | A | -2.7907 | |
| 206 | N | A | -3.0333 | |
| 207 | H | A | -2.6975 | |
| 208 | N | A | -2.7366 | |
| 209 | K | A | -2.3414 | |
| 210 | F | A | -0.3144 | |
| 211 | H | A | -1.4105 | |
| 212 | E | A | -1.9032 | |
| 213 | M | A | -0.3744 | |
| 214 | P | A | -1.2795 | |
| 215 | E | A | -2.0224 | |
| 216 | Y | A | -1.0499 | |
| 217 | D | A | -2.7098 | |
| 218 | D | A | -2.7705 | |
| 219 | Q | A | -2.0675 | |
| 220 | L | A | -0.0880 | |
| 221 | P | A | -0.6839 | |
| 222 | D | A | -0.9487 | |
| 223 | F | A | 0.6265 | |
| 224 | P | A | -0.9685 | |
| 225 | H | A | -1.8736 | |
| 226 | K | A | -2.6537 | |
| 227 | Q | A | -2.8371 | |
| 228 | L | A | -2.4068 | |
| 229 | E | A | -3.8642 | |
| 230 | E | A | -3.8798 | |
| 231 | E | A | -4.0105 | |
| 232 | Q | A | -3.2459 | |
| 233 | C | A | -1.9538 | |
| 234 | P | A | -0.8567 | |
| 235 | F | A | 0.1510 | |
| 236 | C | A | -1.2444 | |
| 237 | K | A | -2.0411 | |
| 238 | L | A | 0.1574 | |
| 239 | S | A | -0.6496 | |
| 240 | E | A | -2.1642 | |
| 241 | V | A | -0.2167 | |
| 242 | L | A | 0.7241 | |
| 243 | N | A | -1.4684 | |
| 244 | S | A | -0.7852 | |
| 245 | G | A | -0.3111 | |
| 246 | S | A | 0.4478 | |
| 247 | V | A | 2.3396 | |
| 248 | V | A | 2.3987 | |
| 249 | P | A | 2.1974 | |
| 250 | L | A | 3.3530 | |
| 251 | W | A | 3.3356 | |
| 252 | L | A | 3.1736 | |
| 253 | V | A | 3.8685 | |
| 254 | C | A | 2.9517 | |
| 255 | P | A | 2.7860 | |
| 256 | I | A | 3.2394 | |
| 257 | C | A | 2.8399 | |
| 258 | Y | A | 3.1708 | |
| 259 | V | A | 2.2633 | |
| 260 | L | A | 1.9382 | |
| 261 | E | A | 0.8593 | |
| 262 | L | A | 1.2858 | |
| 263 | F | A | 1.2508 | |
| 264 | P | A | 0.1847 | |
| 265 | R | A | -0.5308 | |
| 266 | A | A | 0.6987 | |
| 267 | I | A | 1.2865 | |
| 268 | S | A | 0.7147 | |
| 269 | Y | A | 1.3708 | |
| 270 | Y | A | 1.2882 | |
| 271 | F | A | 1.5821 | |
| 272 | N | A | -0.0158 | |
| 273 | A | A | -0.1485 | |
| 274 | E | A | -0.8272 | |
| 275 | A | A | -0.9424 | |
| 276 | A | A | -1.1835 | |
| 277 | A | A | -1.4479 | |
| 278 | K | A | -2.4879 | |
| 279 | E | A | -3.0055 | |
| 280 | A | A | -1.7530 | |
| 281 | A | A | -1.5040 | |
| 282 | A | A | -1.9448 | |
| 283 | K | A | -2.7563 | |
| 284 | A | A | -1.3770 | |
| 285 | F | A | -1.4725 | |
| 286 | D | A | -2.3630 | |
| 287 | A | A | -2.0059 | |
| 288 | S | A | -2.1189 | |
| 289 | N | A | -2.4550 | |
| 290 | F | A | 0.0000 | |
| 291 | K | A | -2.3765 | |
| 292 | D | A | -1.5999 | |
| 293 | F | A | 0.0000 | |
| 294 | S | A | -0.9197 | |
| 295 | S | A | -1.1414 | |
| 296 | I | A | 0.0000 | |
| 297 | A | A | -0.6962 | |
| 298 | S | A | -0.8553 | |
| 299 | A | A | 0.0000 | |
| 300 | S | A | -1.1945 | |
| 301 | S | A | 0.0000 | |
| 302 | S | A | -0.1296 | |
| 303 | W | A | 0.0000 | |
| 304 | Q | A | -1.1300 | |
| 305 | N | A | 0.0000 | |
| 306 | Q | A | -1.7551 | |
| 307 | S | A | -1.3445 | |
| 308 | G | A | -1.2886 | |
| 309 | S | A | 0.0000 | |
| 310 | T | A | -0.8479 | |
| 311 | M | A | 0.0000 | |
| 312 | I | A | -0.0693 | |
| 313 | I | A | 0.0000 | |
| 314 | Q | A | -1.5596 | |
| 315 | V | A | 0.0000 | |
| 316 | D | A | -0.8517 | |
| 317 | S | A | 0.2704 | |
| 318 | F | A | 1.0903 | |
| 319 | G | A | -0.6473 | |
| 320 | N | A | -1.0808 | |
| 321 | V | A | 0.0000 | |
| 322 | S | A | -1.1830 | |
| 323 | G | A | -0.7972 | |
| 324 | Q | A | -0.8881 | |
| 325 | Y | A | 0.0000 | |
| 326 | V | A | 0.0000 | |
| 327 | N | A | 0.0000 | |
| 328 | R | A | -2.6522 | |
| 329 | A | A | -1.9526 | |
| 330 | Q | A | -1.9746 | |
| 331 | G | A | -1.4441 | |
| 332 | T | A | -1.2273 | |
| 333 | G | A | -1.6165 | |
| 334 | C | A | 0.0000 | |
| 335 | Q | A | -2.7215 | |
| 336 | N | A | -2.3091 | |
| 337 | S | A | 0.0000 | |
| 338 | P | A | -1.1340 | |
| 339 | Y | A | 0.0000 | |
| 340 | P | A | -0.9296 | |
| 341 | L | A | 0.0000 | |
| 342 | T | A | -0.9789 | |
| 343 | G | A | -1.2104 | |
| 344 | R | A | -2.0365 | |
| 345 | V | A | 0.0000 | |
| 346 | N | A | -1.3156 | |
| 347 | G | A | -1.2100 | |
| 348 | T | A | -0.3277 | |
| 349 | F | A | 0.5581 | |
| 350 | I | A | 0.0000 | |
| 351 | A | A | -0.5308 | |
| 352 | F | A | 0.0000 | |
| 353 | S | A | -0.6352 | |
| 354 | V | A | 0.0000 | |
| 355 | G | A | -1.1679 | |
| 356 | W | A | 0.0000 | |
| 357 | N | A | -2.6768 | |
| 358 | N | A | -1.8180 | |
| 359 | S | A | -1.2045 | |
| 360 | T | A | -1.4935 | |
| 361 | E | A | -2.4384 | |
| 362 | N | A | -2.8137 | |
| 363 | C | A | -1.8944 | |
| 364 | N | A | -2.2706 | |
| 365 | S | A | -1.2829 | |
| 366 | A | A | -0.3036 | |
| 367 | T | A | 0.0000 | |
| 368 | G | A | -0.5270 | |
| 369 | W | A | 0.0000 | |
| 370 | T | A | -0.0834 | |
| 371 | G | A | 0.7068 | |
| 372 | Y | A | 1.1685 | |
| 373 | A | A | 0.0000 | |
| 374 | Q | A | -0.4945 | |
| 375 | V | A | -1.3103 | |
| 376 | N | A | -1.7492 | |
| 377 | G | A | -1.6150 | |
| 378 | N | A | -2.2670 | |
| 379 | N | A | -1.7274 | |
| 380 | T | A | 0.0000 | |
| 381 | E | A | -0.6160 | |
| 382 | I | A | 0.0000 | |
| 383 | V | A | 0.4009 | |
| 384 | T | A | 0.0000 | |
| 385 | S | A | -0.7515 | |
| 386 | W | A | -0.8539 | |
| 387 | N | A | -0.8596 | |
| 388 | L | A | 0.0000 | |
| 389 | A | A | -0.1350 | |
| 390 | Y | A | -0.5645 | |
| 391 | E | A | -1.8527 | |
| 392 | G | A | -1.0390 | |
| 393 | G | A | -1.0650 | |
| 394 | S | A | -0.8988 | |
| 395 | G | A | -0.8277 | |
| 396 | P | A | -0.7890 | |
| 397 | A | A | -0.1076 | |
| 398 | I | A | 0.8953 | |
| 399 | E | A | -0.7479 | |
| 400 | Q | A | -1.6933 | |
| 401 | G | A | -1.5995 | |
| 402 | Q | A | -1.6162 | |
| 403 | D | A | 0.0000 | |
| 404 | T | A | -0.6395 | |
| 405 | F | A | 0.0000 | |
| 406 | Q | A | -0.9041 | |
| 407 | Y | A | 0.0000 | |
| 408 | V | A | 0.3458 | |
| 409 | P | A | -0.7232 | |
| 410 | T | A | -1.3643 | |
| 411 | T | A | -1.7666 | |
| 412 | E | A | -3.5107 | |
| 413 | N | A | -2.8255 | |
| 414 | K | A | -2.3580 | |
| 415 | S | A | -0.6054 | |
| 416 | L | A | 0.8161 | |
| 417 | L | A | 0.7141 | |
| 418 | K | A | -1.5740 | |
| 419 | D | A | -2.5559 | |
| 420 | T | A | -2.0795 | |
| 421 | H | A | -2.7244 | |
| 422 | H | A | -2.6938 | |
| 423 | H | A | -2.6483 | |
| 424 | H | A | -2.6763 | |
| 425 | H | A | -2.3741 | |
| 426 | H | A | -1.8824 |
Calculations for various pH values
This page contains details and comparisons for all models calculated at different pH points.
Please find suggestions on interpreting the results below. More details can be found in the Tutorial.
The input structure is partially or entirely disordered. Average score is recommended for pH analysis.
pH |
Average A4D Score |
Max A4D Score |
|||
| 4.0 | -0.4419 | 6.5842 | View | CSV | PDB |
| 4.5 | -0.5441 | 6.5754 | View | CSV | PDB |
| 5.0 | -0.6652 | 6.5621 | View | CSV | PDB |
| 5.5 | -0.7776 | 6.5466 | View | CSV | PDB |
| 6.0 | -0.8526 | 6.5312 | View | CSV | PDB |
| 6.5 | -0.8745 | 6.5185 | View | CSV | PDB |
| 7.0 | -0.8502 | 6.5104 | View | CSV | PDB |
| 7.5 | -0.7981 | 6.5065 | View | CSV | PDB |
| 8.0 | -0.731 | 6.505 | View | CSV | PDB |
| 8.5 | -0.6512 | 6.5042 | View | CSV | PDB |
| 9.0 | -0.5576 | 6.5031 | View | CSV | PDB |
ALA alanine
ARG arginine
ASN asparagine
ASP aspartic acid
CYS cysteine
GLN glutamine
GLU glutamic acid
GLY glycine
HIS histidine
ILE isoleucine
LEU leucine
LYS lysine
MET methionine
PHE phenylalanine
PRO proline
SER serine
THR threonine
TRP tryptophan
TYR tyrosine
VAL valine