Project name: 4aadd0762b81aef

Status: done

Started: 2025-02-22 04:34:08
Chain sequence(s) A: MVLSHAVSESDVSVHSTFASRYVRTSLPRFKMPENSIPKEAAYQIINDELMLDGNPRLNLASFVTTWMEPECDKLIMSSINKNYVDMDEYPVTTELQNRCVNMIAHLFNAPLEEAETAVGVGTVGSSEAIMLAGLAFKRKWQNKRKAEGKPVDKPNIVTGANVQVCWEKFARYFEVELKEVKLSEGYYVMDPQQAVDMVDENTICVAAILGSTLNGEFEDVKLLNDLLVEKNKETGWDTPIHVDAASGGFIAPFLYPELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQPTFTLNFSKGSSQVIAQYYQLIRLGHEGYRNVMENCRENMIVLREGLEKTERFNIVSKDEGVPLVAFSLKDSSCHTEFEISDMLRRYGWIVPAYTMPPNAQHITVLRVVIREDFSRTLAERLVIDIEKVMRELDELPSRVIHKISLGQEKSESNSDNLMVTVKKSDIDKQRDIITGWKKFVADRKKTSGIC
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]                                                (00:00:00)
[WARNING]    runJob:   Working directory already exists (possibly overwriting previous results -ow 
                       to prevent this behavior)                                                   (00:00:00)
[INFO]       runJob:   Starting aggrescan3d job on: input.pdb with A chain(s) selected             (00:00:00)
[INFO]       runJob:   Creating pdb object from: input.pdb                                         (00:00:00)
[INFO]       PDB-Info: The input structure is globular. Max score is recommended for pH analysis.  (00:00:02)
[INFO]       FoldX:    Starting FoldX energy minimization                                          (00:00:02)
[INFO]       Analysis: Starting Aggrescan4D on folded.pdb                                          (00:07:51)
[INFO]       agg3D:    Running pKa-ANI on                                                          
                       /STORAGE/DATA/lcbio/aggreskan/4aadd0762b81aef/tmp/folded.pdb                (00:07:51)
[INFO]       Main:     Simulation completed successfully.                                          (00:10:07)
Show buried residues

Minimal score value
-3.9141
Maximal score value
2.8532
Average score
-0.8105
Total score value
-406.8745

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 2.2851
2 V A 2.8532
3 L A 2.3040
4 S A 0.9311
5 H A 0.0498
6 A A 0.3025
7 V A 0.6799
8 S A -0.7158
9 E A -1.8376
10 S A -1.3105
11 D A -1.3852
12 V A 0.1436
13 S A 0.0556
14 V A 1.2218
15 H A -0.0307
16 S A -0.1359
17 T A 0.1029
18 F A 1.3116
19 A A 0.2892
20 S A -0.5827
21 R A -2.0264
22 Y A -0.5655
23 V A -0.4003
24 R A -1.9405
25 T A -1.1398
26 S A -0.6667
27 L A -0.1119
28 P A -0.6918
29 R A -1.2265
30 F A 0.4200
31 K A -1.0515
32 M A -0.3371
33 P A -1.2468
34 E A -2.4307
35 N A -1.9699
36 S A -1.1062
37 I A -0.5018
38 P A -0.9453
39 K A -2.1227
40 E A -2.1643
41 A A 0.0000
42 A A -0.0290
43 Y A 0.2827
44 Q A -0.1304
45 I A 0.4329
46 I A 0.9807
47 N A 0.3214
48 D A -0.3947
49 E A -0.8690
50 L A 0.6030
51 M A 0.7429
52 L A 0.6518
53 D A -1.0951
54 G A -1.3141
55 N A -1.7455
56 P A -1.3567
57 R A -1.0548
58 L A -0.7628
59 N A -0.8269
60 L A 0.0000
61 A A -0.0250
62 S A -0.0745
63 F A 0.0000
64 V A 0.3736
65 T A 0.0000
66 T A -0.1054
67 W A 0.1513
68 M A 0.0000
69 E A -1.3338
70 P A -1.8771
71 E A -2.7208
72 C A 0.0000
73 D A -1.8276
74 K A -2.2332
75 L A -0.4821
76 I A 0.0667
77 M A 0.8264
78 S A 0.1991
79 S A 0.0000
80 I A 1.4244
81 N A -0.5969
82 K A -1.0548
83 N A -0.9163
84 Y A 0.0000
85 V A 0.0000
86 D A -0.9716
87 M A -1.1799
88 D A -1.8645
89 E A -2.1233
90 Y A -0.8749
91 P A -0.4788
92 V A 0.7883
93 T A 0.0000
94 T A -0.9517
95 E A -1.7474
96 L A -0.9846
97 Q A 0.0000
98 N A -1.8157
99 R A -2.5117
100 C A 0.0000
101 V A 0.0000
102 N A -1.2042
103 M A -0.4046
104 I A 0.0000
105 A A 0.0000
106 H A -0.8655
107 L A -0.4794
108 F A 0.0000
109 N A -1.7513
110 A A -1.2754
111 P A -1.2967
112 L A -1.9895
113 E A -3.1353
114 E A -3.1201
115 A A -2.3246
116 E A -2.7810
117 T A -1.6505
118 A A 0.0000
119 V A -0.6979
120 G A -0.2128
121 V A 0.1415
122 G A 0.0000
123 T A 0.0000
124 V A 0.4554
125 G A 0.0000
126 S A 0.0000
127 S A 0.0857
128 E A 0.0000
129 A A 0.0000
130 I A 0.0000
131 M A 0.4087
132 L A 0.0000
133 A A 0.0000
134 G A 0.0000
135 L A 0.0372
136 A A 0.0000
137 F A 0.0000
138 K A -0.8414
139 R A -1.5701
140 K A -2.1595
141 W A 0.0000
142 Q A -2.2020
143 N A -2.2629
144 K A -2.6989
145 R A -3.0110
146 K A -3.3209
147 A A -2.4503
148 E A -3.3440
149 G A -2.7761
150 K A -3.1384
151 P A -2.2999
152 V A -2.1666
153 D A -2.9396
154 K A -3.2908
155 P A 0.0000
156 N A 0.0000
157 I A 0.0000
158 V A 0.0000
159 T A 0.0000
160 G A 0.0000
161 A A -1.0950
162 N A 0.0000
163 V A -0.0306
164 Q A -0.0761
165 V A 0.5811
166 C A 0.0000
167 W A 0.0000
168 E A -1.1800
169 K A -1.1279
170 F A 0.0000
171 A A 0.0000
172 R A -2.3873
173 Y A -0.1936
174 F A -0.7565
175 E A -2.8097
176 V A 0.0000
177 E A -3.0461
178 L A -1.7033
179 K A -1.2718
180 E A -1.8083
181 V A 0.0000
182 K A -2.2948
183 L A 0.0000
184 S A -1.8280
185 E A -2.3604
186 G A -0.9538
187 Y A -0.2835
188 Y A 0.0000
189 V A 0.0000
190 M A 0.0000
191 D A -1.1776
192 P A 0.0000
193 Q A -1.7279
194 Q A -2.4410
195 A A 0.0000
196 V A 0.0000
197 D A -2.3162
198 M A -1.2345
199 V A 0.0000
200 D A -1.0515
201 E A -1.6437
202 N A -1.7160
203 T A 0.0000
204 I A 0.0000
205 C A 0.0000
206 V A 0.0000
207 A A 0.0000
208 A A 0.0000
209 I A 0.0000
210 L A 0.0000
211 G A 0.0075
212 S A 0.0000
213 T A -0.0668
214 L A 0.0755
215 N A 0.0000
216 G A 0.0000
217 E A -1.1519
218 F A -0.6174
219 E A 0.0000
220 D A -1.6021
221 V A 0.0000
222 K A -1.4342
223 L A -0.5469
224 L A 0.0000
225 N A 0.0000
226 D A -0.8604
227 L A -0.9087
228 L A 0.0000
229 V A -1.6575
230 E A -2.9153
231 K A -2.7756
232 N A -2.7463
233 K A -3.6131
234 E A -3.2395
235 T A -2.3018
236 G A -2.1908
237 W A -1.7871
238 D A -2.2022
239 T A 0.0000
240 P A -0.5012
241 I A 0.0000
242 H A 0.0000
243 V A 0.0000
244 D A 0.0000
245 A A 0.0000
246 A A -0.1390
247 S A 0.0000
248 G A 0.0000
249 G A 0.0000
250 F A 0.0000
251 I A 0.0000
252 A A 0.0000
253 P A 0.0000
254 F A 0.0000
255 L A -0.9032
256 Y A -0.6432
257 P A -0.8797
258 E A -1.8512
259 L A -1.2704
260 E A -1.9519
261 W A 0.0000
262 D A 0.0000
263 F A 0.0000
264 R A -1.6495
265 L A 0.0000
266 P A -0.6147
267 L A -0.5962
268 V A 0.0000
269 K A -0.7431
270 S A 0.0000
271 I A 0.0000
272 N A 0.0000
273 V A 0.0000
274 S A 0.0000
275 G A 0.0000
276 H A 0.0484
277 K A -0.1207
278 Y A 0.0000
279 G A 0.0000
280 L A 0.0000
281 V A 0.0000
282 Y A 0.3148
283 A A 0.2230
284 G A -0.0034
285 I A 0.0000
286 G A 0.0000
287 W A 0.0000
288 V A 0.0000
289 I A 0.0000
290 W A 0.0000
291 R A -1.4194
292 N A -1.8879
293 K A -2.8912
294 E A -2.9539
295 D A -2.1336
296 L A 0.0000
297 P A 0.0000
298 E A -2.7154
299 E A -1.8800
300 L A -0.5004
301 I A 0.2630
302 F A 0.8721
303 H A -0.5673
304 I A 0.0000
305 N A -1.5010
306 Y A 0.2778
307 L A -0.3788
308 G A -1.1480
309 A A -1.6874
310 D A -2.3026
311 Q A 0.0000
312 P A -0.5799
313 T A 0.6171
314 F A 0.0000
315 T A 0.9973
316 L A 1.0737
317 N A 0.5330
318 F A 0.9794
319 S A -0.1371
320 K A -0.4413
321 G A -0.5370
322 S A 0.0000
323 S A 0.0000
324 Q A 0.1885
325 V A 0.0000
326 I A 0.5728
327 A A 0.0000
328 Q A 0.0000
329 Y A 0.3431
330 Y A 0.3945
331 Q A 0.0000
332 L A 0.5796
333 I A 1.4261
334 R A -0.5980
335 L A -0.8228
336 G A -0.8211
337 H A -1.9852
338 E A -3.0066
339 G A -2.0006
340 Y A 0.0000
341 R A -2.9240
342 N A -3.1950
343 V A -2.2584
344 M A 0.0000
345 E A -3.6169
346 N A -3.4560
347 C A 0.0000
348 R A -2.8731
349 E A -2.8865
350 N A 0.0000
351 M A 0.0000
352 I A -1.0761
353 V A -0.9128
354 L A 0.0000
355 R A 0.0000
356 E A -1.9346
357 G A -1.7545
358 L A 0.0000
359 E A -3.7446
360 K A -3.5323
361 T A -2.7286
362 E A -3.7290
363 R A -3.2806
364 F A 0.0000
365 N A -2.4614
366 I A -1.3499
367 V A -0.5477
368 S A 0.0000
369 K A -2.8428
370 D A -3.1408
371 E A -2.5605
372 G A 0.0000
373 V A 0.0000
374 P A 0.0000
375 L A 0.0000
376 V A 0.0000
377 A A 0.0000
378 F A 0.0000
379 S A -1.0447
380 L A -2.0592
381 K A -3.4111
382 D A -2.9650
383 S A -1.4531
384 S A -1.0591
385 C A -0.5679
386 H A -0.7391
387 T A -0.2556
388 E A 0.0000
389 F A 0.4891
390 E A -0.4402
391 I A 0.0000
392 S A -0.9425
393 D A -2.1598
394 M A -1.6387
395 L A 0.0000
396 R A -2.3126
397 R A -2.4838
398 Y A -1.0984
399 G A -1.2625
400 W A 0.0000
401 I A -0.8755
402 V A 0.0000
403 P A -0.0582
404 A A 0.1487
405 Y A 0.2661
406 T A -0.4816
407 M A 0.0000
408 P A -1.0792
409 P A -1.7814
410 N A -2.5741
411 A A 0.0000
412 Q A -2.2213
413 H A -1.9049
414 I A -1.0830
415 T A -0.1676
416 V A 0.0000
417 L A 0.0000
418 R A -0.0884
419 V A 0.0000
420 V A 0.0000
421 I A 0.0000
422 R A 0.0000
423 E A -0.9642
424 D A 0.0000
425 F A 0.0000
426 S A -1.0386
427 R A -1.5545
428 T A -0.9635
429 L A -0.5462
430 A A 0.0000
431 E A -1.4105
432 R A -0.8681
433 L A 0.0000
434 V A -0.1194
435 I A 0.6439
436 D A 0.0000
437 I A 0.0000
438 E A -1.1476
439 K A -1.7527
440 V A 0.0000
441 M A 0.0000
442 R A -3.5384
443 E A -2.6841
444 L A 0.0000
445 D A -3.3942
446 E A -3.0291
447 L A -1.3534
448 P A -0.3573
449 S A -0.5805
450 R A -0.8448
451 V A 0.8239
452 I A 1.8543
453 H A 0.0187
454 K A -0.6204
455 I A 1.4155
456 S A 0.2570
457 L A -0.4266
458 G A -1.5276
459 Q A -2.6790
460 E A -3.6640
461 K A -3.6895
462 S A -2.8719
463 E A -3.1578
464 S A -2.2344
465 N A -2.5381
466 S A -2.0665
467 D A -2.3798
468 N A -1.1667
469 L A 1.4675
470 M A 2.3230
471 V A 2.7767
472 T A 1.4570
473 V A 1.0659
474 K A -1.8086
475 K A -2.6462
476 S A -2.1175
477 D A -2.6863
478 I A -0.7673
479 D A -2.6659
480 K A -2.8786
481 Q A -2.1854
482 R A -2.8075
483 D A -2.9560
484 I A -1.3088
485 I A -0.8901
486 T A -1.6292
487 G A -1.4225
488 W A -0.7054
489 K A -1.9948
490 K A -2.6074
491 F A -1.3454
492 V A -1.5638
493 A A -2.7329
494 D A -3.8722
495 R A -3.7929
496 K A -3.9141
497 K A -3.5286
498 T A -2.2470
499 S A -1.4830
500 G A -0.3656
501 I A 1.8911
502 C A 1.5743
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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 globular. Max score is recommended for pH analysis.

pH
Average A4D Score
Max A4D Score
4.0 -0.6466 3.5814 View CSV PDB
4.5 -0.7391 3.456 View CSV PDB
5.0 -0.8532 3.3144 View CSV PDB
5.5 -0.9676 3.2003 View CSV PDB
6.0 -1.0608 3.1366 View CSV PDB
6.5 -1.1173 3.1565 View CSV PDB
7.0 -1.1351 3.1979 View CSV PDB
7.5 -1.1253 3.2478 View CSV PDB
8.0 -1.1002 3.3014 View CSV PDB
8.5 -1.0642 3.3561 View CSV PDB
9.0 -1.0166 3.411 View CSV PDB