Project name: AAV4_1mer_M0

Status: done

Started: 2026-10-21 19:28:47
Settings
Chain sequence(s) GVGNASGDWHCDSTWSEGHVTTTSTRTWVLPTYNNHLYKRLGESLQSNTYNGFSTPWGYFDFNRFHCHFSPRDWQRLINNNWGMRPKAMRVKIFNIQVKEVTTSNGETTVANNLTSTVQIFADSSYELPYVMDAGQEGSLPPFPNDVFMVPQYGYCGLVTGNTSQQQTDRNAFYCLEYFPSQMLRTGNNFEITYSFEKVPFHSMYAHSQSLDRLMNPLIDQYLWGLQSTTTGTTLNAGTATTNFTKLRPTNFSNFKKNWLPGPSIKQQGFSKTANQNYKIPATGSDSLIKYETHSTLDGRWSALTPGPPMATAGPADSKFSNSQLIFAGPKQNGNTATVPGTLIFTSEEELAATNATDTDMWGNLPGGDQSNSNLPTVDRLTALGAVPGMVWQNRDIYYQGPIWAKIPHTDGHFHPSPLIGGFGLKHPPPQIFIKNTPVPANPATTFSSTPVNSFITQYSTGQVSVQIDWEIQKERSKRWNPEVQFTSNYGQQNSLLWAPDAAGKYTEPRAIGTRYLTHHL 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.  (00:00:03)
[INFO]       FoldX:    Starting FoldX energy minimization                                          (00:00:03)
[INFO]       Analysis: Starting Aggrescan4D on folded.pdb                                          (00:03:34)
[INFO]       agg3D:    Running pKa-ANI on                                                          
                       /STORAGE/DATA/lcbio/aggreskan/be518983feeed2/tmp/folded.pdb                 (00:03:34)
[INFO]       Main:     Simulation completed successfully.                                          (00:12:45)
Show buried residues

Minimal score value
-3.01
Maximal score value
1.7106
Average score
-0.5154
Total score value
-268.5013

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
18 G A -0.5173
19 V A 0.6411
20 G A -0.4039
21 N A -1.2611
22 A A -1.0909
23 S A -1.1370
24 G A -1.3647
25 D A -1.5978
26 W A -0.4161
27 H A -0.8982
28 C A -0.5385
29 D A -1.0496
30 S A -0.6410
31 T A -0.4120
32 W A -0.7426
33 S A -1.2062
34 E A -2.3584
35 G A -1.7148
36 H A -1.5501
37 V A 0.0000
38 T A -0.6260
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 0.2767
45 W A 0.0000
46 V A 1.0108
47 L A 0.0000
48 P A 0.1076
49 T A -0.2432
50 Y A -0.2219
51 N A -0.6667
52 N A -1.1543
53 H A -0.3266
54 L A 0.3331
55 Y A -0.0954
56 K A -1.3046
57 R A -1.1467
58 L A -0.6454
59 G A -1.0561
60 E A -1.8134
61 S A -1.4000
62 L A -0.8917
63 Q A -1.7157
64 S A -1.2278
65 N A -1.6418
66 T A 0.0000
67 Y A -0.2870
68 N A 0.0000
69 G A 0.0000
70 F A -0.0323
71 S A -0.3467
72 T A 0.0000
73 P A 0.0000
74 W A 0.0000
75 G A 0.0000
76 Y A 0.0000
77 F A 0.0000
78 D A 0.0000
79 F A 0.0000
80 N A 0.0000
81 R A -0.6732
82 F A 0.0000
83 H A 0.0000
84 C A 0.0000
85 H A 0.0000
86 F A 0.0000
87 S A -0.9919
88 P A -1.2793
89 R A -2.4205
90 D A 0.0000
91 W A 0.0000
92 Q A -2.0568
93 R A -2.4145
94 L A 0.0000
95 I A 0.0000
96 N A -1.0699
97 N A -1.8894
98 N A 0.0000
99 W A -0.9179
100 G A 0.0000
101 M A 0.0000
102 R A -1.0172
103 P A 0.0000
104 K A -1.7345
105 A A -1.1013
106 M A 0.0000
107 R A -1.7842
108 V A 0.0000
109 K A -1.5935
110 I A 0.0000
111 F A 0.0000
112 N A -1.2359
113 I A 0.0000
114 Q A -1.0139
115 V A 0.0000
116 K A -0.5236
117 E A -0.1483
118 V A 0.4219
119 T A -0.0903
120 T A -0.9964
121 S A -1.6422
122 N A -2.1917
123 G A -2.0685
124 E A -2.5893
125 T A -1.0100
126 T A 0.0145
127 V A 0.9395
128 A A -0.0364
129 N A -1.1093
130 N A -0.6234
131 L A 0.3306
132 T A 0.0229
133 S A 0.0000
134 T A -0.4942
135 V A 0.0000
136 Q A -0.4470
137 I A 0.0000
138 F A 0.0000
139 A A -0.3459
140 D A 0.0000
141 S A -0.6199
142 S A -0.8916
143 Y A -1.0464
144 E A -1.6968
145 L A 0.0000
146 P A -0.0900
147 Y A -0.0337
148 V A 0.1347
149 M A 0.0000
150 D A -0.5722
151 A A -0.7506
152 G A -1.4311
153 Q A -2.3283
154 E A -2.5571
155 G A -1.1932
156 S A -0.8616
157 L A 0.0000
158 P A -0.3710
159 P A -0.4582
160 F A -0.5374
161 P A -0.7281
162 N A -1.5584
163 D A -1.4709
164 V A 1.0004
165 F A 0.9687
166 M A 1.3561
167 V A 0.0000
168 P A -0.4203
169 Q A -0.3882
170 Y A 0.0000
171 G A -0.1731
172 Y A 0.0000
173 C A 1.0933
174 G A 0.6431
175 L A 0.1276
176 V A 0.0000
177 T A -0.8705
178 G A -1.2829
179 N A -1.4731
180 T A -1.2069
181 S A -1.1523
182 Q A -1.4636
183 Q A -1.6630
184 Q A -1.6441
185 T A -1.9320
186 D A -2.7470
187 R A -2.5643
188 N A -1.2436
189 A A 0.2744
190 F A 1.6959
191 Y A 1.2660
192 C A 0.9927
193 L A 0.0000
194 E A -0.1859
195 Y A 1.0433
196 F A 0.1984
197 P A -0.2040
198 S A -0.4863
199 Q A -0.9703
200 M A -0.1810
201 L A 0.0000
202 R A -1.5350
203 T A -1.2197
204 G A -1.1550
205 N A -1.7033
206 N A -1.8918
207 F A 0.0000
208 E A -2.2564
209 I A -1.0971
210 T A -0.9010
211 Y A -0.4882
212 S A -1.0981
213 F A 0.0000
214 E A -2.0673
215 K A -2.2288
216 V A 0.0000
217 P A -0.5255
218 F A -0.1102
219 H A -0.0964
220 S A -0.1333
221 M A 0.0000
222 Y A -0.1834
223 A A -0.5776
224 H A -0.7478
225 S A -1.0054
226 Q A -1.1736
227 S A -0.9050
228 L A 0.0000
229 D A -1.7393
230 R A -1.3021
231 L A -0.4651
232 M A -0.3512
233 N A -0.2417
234 P A 0.1354
235 L A 1.4716
236 I A 1.3931
237 D A -0.0990
238 Q A -0.0827
239 Y A 1.2854
240 L A 0.6244
241 W A 1.0203
242 G A 0.4762
243 L A 0.8070
244 Q A -0.5375
245 S A -0.3248
246 T A -0.2101
247 T A -0.5857
248 T A -0.4198
249 G A -0.4809
250 T A -0.2061
251 T A 0.1091
252 L A 0.9179
253 N A -0.5856
254 A A -0.4643
255 G A -0.6884
256 T A -0.5292
257 A A -0.5319
258 T A -0.0892
259 T A 0.0424
260 N A 0.1794
261 F A 1.6513
262 T A 0.3727
263 K A -0.2731
264 L A 0.0000
265 R A -1.6582
266 P A -0.7211
267 T A -0.8110
268 N A -1.4055
269 F A -1.4472
270 S A -1.3853
271 N A -2.1770
272 F A 0.0000
273 K A -2.5865
274 K A -2.4641
275 N A -1.7490
276 W A -0.2533
277 L A 0.4732
278 P A 0.5102
279 G A 0.0000
280 P A 0.4337
281 S A 0.0000
282 I A 0.4826
283 K A -0.5159
284 Q A 0.0000
285 Q A -0.8553
286 G A -0.9272
287 F A -0.4882
288 S A -1.2306
289 K A -1.0192
290 T A -0.9712
291 A A -1.0139
292 N A -2.0672
293 Q A -2.1535
294 N A -1.3210
295 Y A -0.1517
296 K A -1.2943
297 I A -0.2668
298 P A -0.3083
299 A A -0.1232
300 T A -0.4040
301 G A -0.9132
302 S A -0.9709
303 D A -1.1490
304 S A -0.4175
305 L A 0.2264
306 I A 0.3574
307 K A -0.5035
308 Y A 0.0347
309 E A -0.2646
310 T A -0.1664
311 H A -0.1265
312 S A 0.0107
313 T A -0.1483
314 L A -0.1765
315 D A -1.6533
316 G A -1.2848
317 R A -1.0994
318 W A -0.3302
319 S A -0.0824
320 A A 0.0555
321 L A 0.1225
322 T A 0.1034
323 P A 0.0000
324 G A 0.0000
325 P A 0.3078
326 P A 0.1932
327 M A 0.0000
328 A A 0.0000
329 T A 0.0000
330 A A -1.2329
331 G A -1.3436
332 P A -0.8804
333 A A -0.9758
334 D A -1.8916
335 S A -1.5781
336 K A -1.6909
337 F A -0.7149
338 S A 0.0000
339 N A -0.1443
340 S A 0.0000
341 Q A 0.0000
342 L A 0.0000
343 I A 1.4048
344 F A 0.8828
345 A A -0.3217
346 G A -0.7071
347 P A -1.3590
348 K A -2.0075
349 Q A -1.6854
350 N A -2.3276
351 G A -1.7538
352 N A -1.8322
353 T A -0.8663
354 A A -0.0999
355 T A 0.6960
356 V A 1.3700
357 P A 0.6757
358 G A -0.0994
359 T A -0.3524
360 L A 0.5162
361 I A 0.4554
362 F A 0.0000
363 T A 0.0000
364 S A -0.6965
365 E A 0.0000
366 E A -2.0167
367 E A -1.2478
368 L A 0.0000
369 A A -0.6172
370 A A -0.7031
371 T A 0.0000
372 N A 0.0000
373 A A -0.1859
374 T A -0.7683
375 D A 0.0000
376 T A -1.1248
377 D A -1.9558
378 M A -1.1839
379 W A -0.5123
380 G A -1.1306
381 N A -1.7845
382 L A -0.7413
383 P A -1.1730
384 G A -1.5394
385 G A -1.7447
386 D A -2.8024
387 Q A -2.6935
388 S A -2.1008
389 N A -1.9570
390 S A -1.5074
391 N A -1.9084
392 L A -0.1938
393 P A -0.6077
394 T A -0.3442
395 V A -0.0603
396 D A -2.2590
397 R A -2.7614
398 L A -1.2331
399 T A -0.9170
400 A A -0.0052
401 L A 0.4070
402 G A 0.0097
403 A A 0.5035
404 V A 0.6429
405 P A 0.2354
406 G A -0.0587
407 M A 0.6006
408 V A 0.9186
409 W A 0.4839
410 Q A -0.1177
411 N A -0.2598
412 R A 0.0000
413 D A 0.0000
414 I A 0.0000
415 Y A 0.0000
416 Y A 0.0000
417 Q A 0.0000
418 G A 0.0000
419 P A -0.4515
420 I A 0.0000
421 W A 0.0000
422 A A -0.4601
423 K A -1.1429
424 I A 0.0000
425 P A -1.4420
426 H A -1.9276
427 T A -1.7680
428 D A -2.4207
429 G A -1.4469
430 H A -0.6697
431 F A 1.2041
432 H A 0.0888
433 P A -0.1999
434 S A 0.0312
435 P A 0.2642
436 L A 0.9958
437 I A 0.8538
438 G A 0.0000
439 G A 0.0442
440 F A 0.0000
441 G A -0.7178
442 L A 0.0000
443 K A -2.1028
444 H A -1.8120
445 P A 0.0000
446 P A 0.0000
447 P A 0.0000
448 Q A 0.0000
449 I A 0.0000
450 F A 0.0000
451 I A 0.0000
452 K A 0.0000
453 N A 0.0000
454 T A 0.1700
455 P A -0.0886
456 V A 0.3926
457 P A 0.0307
458 A A -0.3440
459 N A -1.2729
460 P A -0.5504
461 A A 0.1104
462 T A 0.1266
463 T A 0.7640
464 F A 1.7106
465 S A 0.7140
466 S A 0.2195
467 T A 0.0754
468 P A -0.0128
469 V A 0.6115
470 N A -0.7331
471 S A -0.5310
472 F A 0.0979
473 I A 0.5494
474 T A 0.1292
475 Q A 0.0000
476 Y A 0.3291
477 S A 0.0000
478 T A 0.1510
479 G A 0.0000
480 Q A -0.3589
481 V A 0.0000
482 S A -0.8459
483 V A 0.0000
484 Q A -0.9511
485 I A 0.0000
486 D A -1.1268
487 W A 0.0000
488 E A -1.3373
489 I A 0.0000
490 Q A -2.0452
491 K A -2.6265
492 E A -2.4232
493 R A -3.0100
494 S A -2.2684
495 K A -2.3311
496 R A -1.6920
497 W A -0.0641
498 N A -0.5537
499 P A -0.2866
500 E A 0.1370
501 V A 1.2260
502 Q A 0.0332
503 F A 0.0000
504 T A -0.6613
505 S A -0.8486
506 N A -1.4849
507 Y A -0.7228
508 G A -1.3349
509 Q A -1.9574
510 Q A -1.6035
511 N A -1.6658
512 S A -0.5042
513 L A 0.8360
514 L A 0.6316
515 W A 0.2495
516 A A 0.1390
517 P A -0.7662
518 D A -1.1635
519 A A -0.5771
520 A A -0.8806
521 G A -1.4702
522 K A -2.2174
523 Y A -1.2182
524 T A -0.8281
525 E A -0.2910
526 P A -0.5388
527 R A -0.6444
528 A A 0.0000
529 I A 0.0000
530 G A -0.1285
531 T A 0.0000
532 R A 0.0201
533 Y A 0.3305
534 L A 0.0000
535 T A -0.3651
536 H A -1.3329
537 H A -1.1062
538 L A -0.0898
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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 -0.1199 4.5544 View CSV PDB
4.5 -0.1563 4.5548 View CSV PDB
5.0 -0.1994 4.5563 View CSV PDB
5.5 -0.2411 4.5606 View CSV PDB
6.0 -0.2734 4.5721 View CSV PDB
6.5 -0.2906 4.5966 View CSV PDB
7.0 -0.2939 4.6354 View CSV PDB
7.5 -0.2891 4.6832 View CSV PDB
8.0 -0.2803 4.735 View CSV PDB
8.5 -0.2673 4.7881 View CSV PDB
9.0 -0.2483 4.8414 View CSV PDB