Project name: AAV3_1mer_M0

Status: done

Started: 2026-10-21 19:05:33
Settings
Chain sequence(s) ADGVGNSSGNWHCDSQWLGDRVITTSTRTWALPTYNNHLYKQISSQSGASNDNHYFGYSTPWGYFDFNRFHCHFSPRDWQRLINNNWGFRPKKLSFKLFNIQVKEVTQNDGTTTIANNLTSTVQVFTDSEYQLPYVLGSAHQGCLPPFPADVFMVPQYGYLTLNNGSQAVGRSSFYCLEYFPSQMLRTGNNFQFSYTFEDVPFHSSYAHSQSLDRLMNPLIDQYLYYLNRTQGTTSGTTNQSRLLFSQAGPQSMSLQARNWLPGPCYRQQRLSKTANDNNNSNFPWTAASKYHLNGRDSLVNPGPAMASHKDDEEKFFPMHGNLIFGKEGTTASNAELDNVMITDEEEIRTTNPVATEQYGTVANNLQSSNTAPTTRTVNDQGALPGMVWQDRDVYLQGPIWAKIPHTDGHFHPSPLMGGFGLKHPPPQIMIKNTPVPANPPTTFSPAKFASFITQYSTGQVSVEIEWELQKENSKRWNPEIQYTSNYNKSVNVDFTVDTNGVYSEPRPIGTRYLTRNL input PDB
Selected Chain(s) A
Distance of aggregation 10 Å
FoldX usage Yes
pH calculations Yes
Dynamic mode No
Automated mutations No
Downloads Download all the data
Simulation log
[INFO]       Logger:   Verbosity set to: 2 - [INFO]                                                (00:00:01)
[WARNING]    runJob:   Working directory already exists (possibly overwriting previous results -ow 
                       to prevent this behavior)                                                   (00:00:01)
[INFO]       runJob:   Starting aggrescan3d job on: input.pdb with A chain(s) selected             (00:00:01)
[INFO]       runJob:   Creating pdb object from: input.pdb                                         (00:00:01)
[INFO]       PDB-Info: The input structure is globular. Max score is recommended for pH analysis.  (00:00:04)
[INFO]       FoldX:    Starting FoldX energy minimization                                          (00:00:04)
[INFO]       Analysis: Starting Aggrescan4D on folded.pdb                                          (00:03:50)
[INFO]       agg3D:    Running pKa-ANI on                                                          
                       /STORAGE/DATA/lcbio/aggreskan/e6462c2690c26b/tmp/folded.pdb                 (00:03:50)
[INFO]       Main:     Simulation completed successfully.                                          (00:13:16)
Show buried residues

Minimal score value
-3.8664
Maximal score value
2.6005
Average score
-0.577
Total score value
-299.4841

The table below lists A3D score for protein residues. Residues with A3D score > 0.0000 are marked by yellow rows.

residue index residue name chain Aggrescan3D score mutation
residue index residue name chain Aggrescan3D score
mutation
16 A A -0.8931
17 D A -1.6859
18 G A -0.8174
19 V A 0.5868
20 G A -0.5790
21 N A -1.6004
22 S A -1.4075
23 S A -1.2769
24 G A -1.1621
25 N A -1.2004
26 W A -0.3596
27 H A -1.3117
28 C A -1.1675
29 D A -2.2040
30 S A -1.5574
31 Q A -1.4935
32 W A -1.0729
33 L A -0.7134
34 G A -1.4570
35 D A -2.5387
36 R A -1.9787
37 V A 0.0000
38 I A -0.9241
39 T A 0.0000
40 T A 0.0000
41 S A 0.0000
42 T A 0.0000
43 R A 0.0000
44 T A 0.6100
45 W A 0.0000
46 A A 0.7054
47 L A 0.0000
48 P A 0.0607
49 T A -0.3164
50 Y A -0.3798
51 N A -1.0296
52 N A -1.2439
53 H A -0.5849
54 L A -0.4196
55 Y A -0.6025
56 K A -1.6424
57 Q A -1.0617
58 I A -0.2262
59 S A -0.3791
60 S A 0.0000
61 Q A -1.5517
62 S A -1.1175
63 G A -1.2765
64 A A -1.5299
65 S A -1.8358
66 N A -2.6158
67 D A -2.4085
68 N A -2.3866
69 H A -2.0351
70 Y A -0.2713
71 F A 0.3529
72 G A 0.0000
73 Y A 0.1921
74 S A -0.4406
75 T A 0.0000
76 P A 0.0000
77 W A 0.0000
78 G A 0.0000
79 Y A 0.0000
80 F A 0.0000
81 D A 0.0000
82 F A 0.0000
83 N A 0.0000
84 R A -0.7869
85 F A 0.0000
86 H A 0.0000
87 C A 0.0000
88 H A 0.0000
89 F A 0.0000
90 S A -0.9534
91 P A -1.1339
92 R A -1.9878
93 D A -1.8833
94 W A 0.0000
95 Q A -1.8743
96 R A -2.3238
97 L A 0.0000
98 I A 0.0000
99 N A -1.0834
100 N A -1.9243
101 N A 0.0000
102 W A -0.8562
103 G A 0.0000
104 F A 0.0000
105 R A -0.8847
106 P A 0.0000
107 K A -1.6608
108 K A -1.5894
109 L A 0.0000
110 S A -0.8451
111 F A 0.0000
112 K A -1.1516
113 L A 0.0000
114 F A 0.0000
115 N A -1.2673
116 I A 0.0000
117 Q A -1.1823
118 V A 0.0000
119 K A -0.5449
120 E A -0.0917
121 V A 0.0144
122 T A -0.6522
123 Q A -2.2233
124 N A -2.9079
125 D A -2.9286
126 G A -2.0931
127 T A -1.6910
128 T A -0.9322
129 T A -0.0458
130 I A 0.7366
131 A A -0.1065
132 N A -1.2121
133 N A -0.8076
134 L A -0.0357
135 T A -0.2421
136 S A 0.0000
137 T A -0.4306
138 V A 0.0000
139 Q A -0.4224
140 V A 0.0000
141 F A 0.0000
142 T A -0.4114
143 D A 0.0000
144 S A -1.2998
145 E A -2.2465
146 Y A -1.5067
147 Q A -1.3960
148 L A 0.0000
149 P A 0.4016
150 Y A 0.0652
151 V A 0.2677
152 L A 0.0000
153 G A -0.4534
154 S A -0.6297
155 A A -0.8709
156 H A -1.6831
157 Q A -1.8015
158 G A -0.7485
159 C A -0.5142
160 L A 0.0000
161 P A 0.0000
162 P A 0.1616
163 F A 1.0545
164 P A 0.4332
165 A A 0.4079
166 D A 0.5778
167 V A 1.7687
168 F A 0.0000
169 M A 1.3417
170 V A 0.0000
171 P A -0.2962
172 Q A -0.3480
173 Y A 0.0000
174 G A -0.0503
175 Y A 0.0000
176 L A 1.9502
177 T A 1.1468
178 L A 0.0978
179 N A -0.7714
180 N A -1.8914
181 G A -1.8710
182 S A -1.5282
183 Q A -1.4652
184 A A -1.1511
185 V A -0.9858
186 G A -1.1547
187 R A -1.7215
188 S A -0.3765
189 S A 0.5793
190 F A 1.6342
191 Y A 1.1827
192 C A 0.9064
193 L A 0.0000
194 E A -0.2571
195 Y A 1.0022
196 F A 0.2488
197 P A -0.2154
198 S A -0.4766
199 Q A -0.9909
200 M A -0.0195
201 L A 0.0000
202 R A -1.4558
203 T A -1.1746
204 G A 0.0000
205 N A -1.4184
206 N A -1.5987
207 F A 0.0000
208 Q A -1.3421
209 F A -0.4604
210 S A -0.6165
211 Y A -0.3970
212 T A -1.0824
213 F A 0.0000
214 E A -1.9910
215 D A -2.0985
216 V A 0.0000
217 P A -0.4966
218 F A -0.0466
219 H A 0.0000
220 S A -0.1823
221 S A 0.0000
222 Y A 0.0000
223 A A -0.4731
224 H A -0.8814
225 S A -0.9494
226 Q A -0.9583
227 S A -0.8223
228 L A -0.2332
229 D A -1.2393
230 R A -1.2704
231 L A -0.2263
232 M A -0.2899
233 N A -0.5370
234 P A -0.0443
235 L A 1.5680
236 I A 1.5625
237 D A -0.6799
238 Q A 0.3521
239 Y A 1.5182
240 L A 1.7357
241 Y A 2.6005
242 Y A 1.7627
243 L A 1.7853
244 N A 0.3391
245 R A -1.5039
246 T A -1.3918
247 Q A -2.6744
248 G A -1.8911
249 T A -1.2781
250 T A -1.0110
251 S A -0.8362
252 G A -0.8608
253 T A -0.7966
254 T A -1.2558
255 N A -2.5837
256 Q A -2.6194
257 S A -2.2821
258 R A -2.1674
259 L A 0.4108
260 L A 0.9603
261 F A 2.4104
262 S A 1.3510
263 Q A 0.5650
264 A A 0.0000
265 G A 0.0000
266 P A -0.5902
267 Q A -1.3983
268 S A 0.0000
269 M A -0.5144
270 S A -0.1387
271 L A 1.0139
272 Q A 0.0000
273 A A 0.1990
274 R A -0.8039
275 N A -1.0871
276 W A 0.4093
277 L A 0.8203
278 P A 0.5836
279 G A 0.0000
280 P A -0.2087
281 C A 0.0000
282 Y A -1.1121
283 R A -1.6894
284 Q A 0.0000
285 Q A -1.4839
286 R A -1.6759
287 L A -1.4036
288 S A 0.0000
289 K A -2.0222
290 T A -1.4669
291 A A -1.6093
292 N A -2.6125
293 D A -2.8551
294 N A -2.7215
295 N A -2.8170
296 N A -2.6834
297 S A -1.8465
298 N A -1.6654
299 F A -0.7492
300 P A -0.1338
301 W A 0.4105
302 T A 0.0462
303 A A -0.2741
304 A A -0.1666
305 S A -0.1927
306 K A 0.0697
307 Y A 0.6704
308 H A -0.6124
309 L A 0.1057
310 N A -1.4341
311 G A -1.5597
312 R A -1.9747
313 D A -1.2667
314 S A -0.3539
315 L A 0.1487
316 V A 0.0000
317 N A -0.9517
318 P A 0.0000
319 G A 0.0000
320 P A 0.0105
321 A A 0.1058
322 M A 0.0000
323 A A 0.0000
324 S A 0.0000
325 H A 0.0000
326 K A -2.9579
327 D A -3.7620
328 D A -3.7681
329 E A -3.3424
330 E A -3.8664
331 K A -2.7634
332 F A -2.1434
333 F A 0.0000
334 P A 0.0000
335 M A 0.0000
336 H A -0.6019
337 G A 0.0000
338 N A 0.0000
339 L A 0.0000
340 I A 1.3259
341 F A 0.2017
342 G A -1.1990
343 K A -2.4394
344 E A -2.5010
345 G A -1.6302
346 T A -1.9072
347 T A -1.1605
348 A A -0.4594
349 S A -1.0358
350 N A -1.7632
351 A A -1.8560
352 E A -2.3760
353 L A -1.2218
354 D A -2.3429
355 N A -2.3683
356 V A -0.9282
357 M A 0.0000
358 I A 0.3815
359 T A 0.0000
360 D A -1.1443
361 E A 0.0000
362 E A -2.0802
363 E A -1.3068
364 I A 0.0000
365 R A -1.2364
366 T A -0.7291
367 T A 0.0000
368 N A 0.0000
369 P A -0.3851
370 V A -0.6006
371 A A 0.0000
372 T A -1.2987
373 E A -1.5552
374 Q A -1.5607
375 Y A -0.8302
376 G A -0.6969
377 T A -0.4439
378 V A 0.1468
379 A A -0.6203
380 N A -1.7144
381 N A -0.9579
382 L A 0.3214
383 Q A -1.2050
384 S A -1.0420
385 S A -1.1871
386 N A -1.6734
387 T A -1.0222
388 A A -0.6966
389 P A -0.9015
390 T A -0.9466
391 T A -1.2536
392 R A -2.0231
393 T A -1.2843
394 V A -1.2296
395 N A -2.0975
396 D A -2.3578
397 Q A -1.3233
398 G A -0.7374
399 A A 0.3656
400 L A 0.6759
401 P A 0.3231
402 G A 0.2137
403 M A 0.0000
404 V A 1.0268
405 W A 0.3958
406 Q A -0.3195
407 D A -0.4872
408 R A 0.0000
409 D A 0.0000
410 V A 0.0000
411 Y A 0.0000
412 L A 0.0000
413 Q A 0.0000
414 G A 0.0000
415 P A -0.3859
416 I A 0.0000
417 W A 0.0000
418 A A -0.4539
419 K A -1.2127
420 I A -1.3301
421 P A -1.4541
422 H A -2.1004
423 T A -1.7890
424 D A -2.4759
425 G A -1.5875
426 H A -0.9708
427 F A 1.0016
428 H A -0.1009
429 P A -0.2541
430 S A 0.0783
431 P A 0.2945
432 L A 0.9239
433 M A 0.4564
434 G A 0.0000
435 G A -0.0180
436 F A 0.0000
437 G A -0.7498
438 L A 0.0000
439 K A -2.5077
440 H A -2.2901
441 P A 0.0000
442 P A 0.0000
443 P A 0.0000
444 Q A 0.0000
445 I A 0.0000
446 M A 0.0000
447 I A 0.0000
448 K A 0.0000
449 N A 0.0000
450 T A 0.1604
451 P A 0.1251
452 V A 0.4541
453 P A 0.1967
454 A A -0.2000
455 N A -1.3174
456 P A -0.5782
457 P A -0.3310
458 T A -0.0084
459 T A 0.6733
460 F A 1.6684
461 S A 0.4242
462 P A -0.1430
463 A A -0.4169
464 K A -1.2348
465 F A 0.2368
466 A A 0.0061
467 S A -0.1323
468 F A 0.4262
469 I A 0.6871
470 T A 0.1860
471 Q A 0.0000
472 Y A 0.3486
473 S A 0.0000
474 T A 0.0621
475 G A 0.0000
476 Q A -0.3232
477 V A 0.0000
478 S A -0.6936
479 V A 0.0000
480 E A -1.2611
481 I A 0.0000
482 E A -1.1549
483 W A 0.0000
484 E A -1.5443
485 L A 0.0000
486 Q A -1.8268
487 K A -2.4230
488 E A -2.2198
489 N A -2.5462
490 S A -2.2376
491 K A -2.4091
492 R A -1.9178
493 W A -0.0478
494 N A -0.4997
495 P A -0.1879
496 E A 0.2348
497 I A 1.5507
498 Q A 0.1684
499 Y A 0.0000
500 T A -0.2111
501 S A -0.6369
502 N A -1.2079
503 Y A -0.3612
504 N A -1.9136
505 K A -1.8408
506 S A -0.4355
507 V A 1.0957
508 N A 0.2892
509 V A 1.0880
510 D A 0.2289
511 F A 0.1857
512 T A 0.7114
513 V A 0.6319
514 D A -0.2983
515 T A -0.8987
516 N A -1.2580
517 G A -0.5838
518 V A 0.2538
519 Y A 0.3408
520 S A -0.3675
521 E A -0.8603
522 P A -0.8518
523 R A -0.8247
524 P A -0.3774
525 I A 0.0000
526 G A -0.2437
527 T A 0.0000
528 R A 0.0000
529 Y A 0.3923
530 L A 0.0000
531 T A -0.7124
532 R A -1.7274
533 N A -1.3669
534 L A 0.0492
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Calculations for various pH values

This page contains details and comparisons for all models calculated at different pH points.

pH
Average A3D Score
Max A3D Score
4.0 -0.2075 4.9094 View CSV PDB
4.5 -0.2493 4.9094 View CSV PDB
5.0 -0.2978 4.9094 View CSV PDB
5.5 -0.3453 4.9094 View CSV PDB
6.0 -0.3844 4.9094 View CSV PDB
6.5 -0.4105 4.9094 View CSV PDB
7.0 -0.425 4.9094 View CSV PDB
7.5 -0.4327 4.9094 View CSV PDB
8.0 -0.4362 4.9094 View CSV PDB
8.5 -0.4343 4.9094 View CSV PDB
9.0 -0.4248 4.9094 View CSV PDB