Project name: mi2699_6T13_monomer_conf4

Status: done

Started: 2026-05-29 17:07:05
Chain sequence(s) A: ARPCIPKSFGYSSVVCVCNATYCDSFDPPTFPALGTFSRYESTRSGRRMELSMGPIQANHTGTGLLLTLQPEQKFQKVKGFGGAMTDAAALNILALSPPAQNLLLKSYFSEEGIGYNIIRVPMASCDFSIRTYTYADTPDDFQLHNFSLPEEDTKLKIPLIHRALQLAQRPVSLLASPWTSPTWLKTNGAVNGKGSLKGQPGDIYHQTWARYFVKFLDAYAEHKLQFWAVTAENEPSAGLLSGYPFQCLGFTPEHQRDFIARDLGPTLANSTHHNVRLLMLDDQRLLLPHWAKVVLTDPEAAKYVHGIAVHWYLDFLAPAKATLGETHRLFPNTMLFASEACVGSKFWEQSVRLGSWDRGMQYSHSIITNLLYHVVGWTDWNLALNPEGGPNWVRNFVDSPIIVDITKDTFYKQPMFYHLGHFSKFIPEGSQRVGLVASQKNDLDAVALMHPDGSAVVVVLNRSSKDVPLTIKDPAVGFLETISPGYSIHTYLWHRQ
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.  (00:00:01)
[INFO]       FoldX:    Starting FoldX energy minimization                                          (00:00:02)
[INFO]       Analysis: Starting Aggrescan4D on folded.pdb                                          (00:03:59)
[INFO]       agg3D:    Running pKa-ANI on                                                          
                       /STORAGE/DATA/lcbio/aggreskan/3f215d67351acf7/tmp/folded.pdb                (00:03:59)
[INFO]       Main:     Simulation completed successfully.                                          (00:06:46)
Show buried residues

Minimal score value
-2.9504
Maximal score value
2.3972
Average score
-0.5206
Total score value
-258.7347

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 A A -1.2234
2 R A -1.4059
3 P A -1.2567
4 C A -0.4249
5 I A 0.1534
6 P A -0.5618
7 K A -0.5363
8 S A -0.0682
9 F A 0.6589
10 G A 0.1144
11 Y A 0.5364
12 S A -0.1041
13 S A 0.0000
14 V A -0.0994
15 V A 0.0000
16 C A 0.0000
17 V A 0.0000
18 C A 0.0000
19 N A -0.6051
20 A A -0.3548
21 T A -0.0623
22 Y A 0.1359
23 C A 0.0000
24 D A 0.0000
25 S A 0.0000
26 F A -1.6346
27 D A -2.4500
28 P A -1.6423
29 P A -0.6691
30 T A 0.5861
31 F A 2.0394
32 P A 0.0000
33 A A 1.0678
34 L A 1.4261
35 G A 0.5190
36 T A 0.6421
37 F A 0.0000
38 S A 0.0000
39 R A -0.4330
40 Y A -0.3481
41 E A -1.2528
42 S A -1.4425
43 T A -1.5453
44 R A -1.7417
45 S A -1.3210
46 G A -1.3773
47 R A -2.3145
48 R A 0.0000
49 M A -1.0135
50 E A -1.2768
51 L A -0.1900
52 S A 0.0783
53 M A 0.3951
54 G A -0.2587
55 P A -0.2139
56 I A -0.3562
57 Q A -1.2567
58 A A -0.9246
59 N A -1.6033
60 H A -1.3514
61 T A -0.7792
62 G A -0.9487
63 T A -0.5858
64 G A -0.6434
65 L A -0.5999
66 L A -0.3343
67 L A 0.0000
68 T A 0.2135
69 L A 0.0000
70 Q A -1.2252
71 P A -1.7417
72 E A -2.8986
73 Q A -2.7307
74 K A -2.8946
75 F A -1.4002
76 Q A -1.1712
77 K A -2.2567
78 V A 0.0000
79 K A -0.9758
80 G A 0.0000
81 F A 0.0000
82 G A 0.0000
83 G A 0.0000
84 A A 0.0000
85 M A 0.0000
86 T A 0.0000
87 D A 0.0000
88 A A 0.0000
89 A A 0.0000
90 A A 0.0000
91 L A 0.8786
92 N A 0.0000
93 I A 0.0000
94 L A 0.6966
95 A A 0.2284
96 L A 0.0000
97 S A -0.5329
98 P A -0.4767
99 P A -0.5383
100 A A 0.0000
101 Q A -0.4860
102 N A -0.5865
103 L A -0.2639
104 L A 0.0000
105 L A 0.0000
106 K A -1.0425
107 S A 0.0000
108 Y A 0.0000
109 F A 0.0000
110 S A 0.0000
111 E A -2.8861
112 E A -2.2881
113 G A 0.0000
114 I A 0.0000
115 G A -1.1973
116 Y A 0.0000
117 N A -0.6321
118 I A 0.0000
119 I A 0.0000
120 R A 0.0000
121 V A 0.0000
122 P A 0.0000
123 M A 0.0000
124 A A -0.0104
125 S A -0.1707
126 C A 0.0000
127 D A -0.6003
128 F A 0.0000
129 S A 0.0000
130 I A 0.4523
131 R A -0.5574
132 T A -0.3549
133 Y A 0.0000
134 T A -0.4619
135 Y A 0.0000
136 A A -1.5818
137 D A -2.6038
138 T A -1.8581
139 P A -1.6517
140 D A -2.1751
141 D A -1.8862
142 F A -0.6166
143 Q A -1.7037
144 L A 0.0000
145 H A -2.1584
146 N A -2.4042
147 F A -1.3315
148 S A -0.7242
149 L A -0.4322
150 P A -1.0455
151 E A -2.1412
152 E A -1.2457
153 D A 0.0000
154 T A -1.3869
155 K A -2.1872
156 L A -0.8316
157 K A 0.0000
158 I A 0.0000
159 P A -0.6473
160 L A 0.0000
161 I A 0.0000
162 H A -0.9372
163 R A -0.9022
164 A A 0.0000
165 L A -0.5960
166 Q A -1.3610
167 L A -1.1892
168 A A -1.4586
169 Q A -2.1142
170 R A -2.5487
171 P A -1.2973
172 V A -0.6071
173 S A 0.0000
174 L A 0.0000
175 L A 0.0000
176 A A 0.0000
177 S A 0.0000
178 P A 0.0000
179 W A -0.0897
180 T A -0.1783
181 S A 0.0000
182 P A -0.2363
183 T A -0.4369
184 W A -0.5780
185 L A 0.0000
186 K A 0.0000
187 T A -1.2142
188 N A -1.5781
189 G A -0.9214
190 A A -0.7796
191 V A -0.1770
192 N A -0.8631
193 G A 0.0000
194 K A -1.5068
195 G A 0.0000
196 S A -1.0025
197 L A 0.0000
198 K A -1.7236
199 G A -1.8269
200 Q A -2.1526
201 P A -2.1165
202 G A -2.1213
203 D A -2.4394
204 I A -0.5926
205 Y A -0.8374
206 H A 0.0000
207 Q A -1.0523
208 T A 0.0000
209 W A 0.0000
210 A A 0.0000
211 R A -1.1828
212 Y A 0.0000
213 F A 0.0000
214 V A -0.7736
215 K A -1.1697
216 F A 0.0000
217 L A 0.0000
218 D A -2.2333
219 A A -1.6393
220 Y A 0.0000
221 A A -2.4358
222 E A -2.9504
223 H A -2.3283
224 K A -2.8637
225 L A 0.0000
226 Q A -2.1489
227 F A 0.0000
228 W A 0.0000
229 A A 0.0000
230 V A 0.0000
231 T A 0.0000
232 A A 0.0000
233 E A 0.0000
234 N A -0.3521
235 E A -0.5162
236 P A 0.0000
237 S A -0.0158
238 A A 0.1846
239 G A 0.0000
240 L A 0.3957
241 L A 0.6053
242 S A -0.1408
243 G A -0.3995
244 Y A 0.1319
245 P A 0.1431
246 F A 1.1294
247 Q A -0.3171
248 C A 0.0000
249 L A 0.0000
250 G A 0.0000
251 F A 0.0000
252 T A -0.5993
253 P A -1.2431
254 E A -2.0725
255 H A -1.4957
256 Q A 0.0000
257 R A -1.6878
258 D A -2.0956
259 F A 0.0000
260 I A 0.0000
261 A A 0.0000
262 R A -2.5544
263 D A 0.0000
264 L A 0.0000
265 G A 0.0000
266 P A -0.7827
267 T A -0.9267
268 L A 0.0000
269 A A -1.0235
270 N A -1.4771
271 S A -1.0950
272 T A -0.8959
273 H A 0.0000
274 H A -1.8094
275 N A -1.5930
276 V A -1.1458
277 R A -1.1948
278 L A 0.0000
279 L A 0.0000
280 M A 0.0000
281 L A 0.0000
282 D A 0.0000
283 D A 0.0000
284 Q A 0.0000
285 R A 0.0000
286 L A 1.2911
287 L A 0.4313
288 L A 0.0000
289 P A -0.7048
290 H A -1.0145
291 W A -0.7093
292 A A 0.0000
293 K A -0.9926
294 V A -0.9952
295 V A 0.0000
296 L A 0.0000
297 T A -0.5817
298 D A -1.2718
299 P A -1.3964
300 E A -2.1562
301 A A 0.0000
302 A A -1.5779
303 K A -2.1756
304 Y A -1.2267
305 V A 0.0000
306 H A -1.0797
307 G A 0.0000
308 I A 0.0000
309 A A 0.0000
310 V A 0.0000
311 H A 0.0000
312 W A 0.5763
313 Y A 0.8683
314 L A 1.5212
315 D A 0.9268
316 F A 2.3972
317 L A 2.2573
318 A A 0.0000
319 P A -0.1550
320 A A 0.0000
321 K A -2.0184
322 A A -1.1291
323 T A 0.0000
324 L A 0.0000
325 G A -1.7759
326 E A -2.1290
327 T A 0.0000
328 H A -1.8678
329 R A -2.3378
330 L A -1.0566
331 F A -0.9233
332 P A -1.2086
333 N A -1.5553
334 T A -0.8733
335 M A -0.5488
336 L A 0.0000
337 F A 0.0000
338 A A 0.0000
339 S A 0.0000
340 E A 0.0000
341 A A 0.0000
342 C A 0.0000
343 V A 0.0000
344 G A 0.0000
345 S A -0.3702
346 K A -0.1275
347 F A 1.6862
348 W A 1.4321
349 E A -0.0782
350 Q A -1.3910
351 S A -1.4756
352 V A -1.0508
353 R A -1.3485
354 L A -0.0577
355 G A 0.0000
356 S A 0.0000
357 W A -0.9138
358 D A -2.0745
359 R A 0.0000
360 G A 0.0000
361 M A 0.0000
362 Q A -1.2518
363 Y A 0.0000
364 S A 0.0000
365 H A -0.8175
366 S A -0.4029
367 I A 0.0000
368 I A 0.0000
369 T A -0.2604
370 N A -0.0224
371 L A 0.0000
372 L A 0.1894
373 Y A -0.2196
374 H A -0.2025
375 V A 0.0000
376 V A 0.0000
377 G A 0.0000
378 W A 0.0000
379 T A 0.0000
380 D A 0.0000
381 W A 0.0000
382 N A 0.0000
383 L A 0.0000
384 A A 0.0000
385 L A 0.0000
386 N A -0.6867
387 P A -1.1277
388 E A -2.4905
389 G A 0.0000
390 G A 0.0000
391 P A -0.4345
392 N A 0.0000
393 W A 0.2474
394 V A 0.3103
395 R A -1.9228
396 N A -2.1072
397 F A -1.4846
398 V A 0.0000
399 D A 0.0000
400 S A 0.0000
401 P A 0.0000
402 I A 0.0000
403 I A 0.0000
404 V A 0.0000
405 D A -0.9510
406 I A 0.0593
407 T A -0.7161
408 K A -1.9168
409 D A -1.4060
410 T A -1.0095
411 F A 0.0000
412 Y A 0.0000
413 K A 0.0000
414 Q A 0.0000
415 P A 0.0000
416 M A 0.0000
417 F A 0.0000
418 Y A 0.0000
419 H A 0.0000
420 L A 0.0000
421 G A 0.0000
422 H A 0.0000
423 F A 0.0000
424 S A 0.0000
425 K A -0.7412
426 F A 0.0000
427 I A 0.0000
428 P A -1.1566
429 E A -1.5510
430 G A -1.4402
431 S A 0.0000
432 Q A -1.5111
433 R A 0.0000
434 V A 0.0000
435 G A 0.0000
436 L A 0.5936
437 V A 1.1429
438 A A -0.1674
439 S A -0.5433
440 Q A -1.5176
441 K A -2.4431
442 N A -2.0129
443 D A -2.5961
444 L A 0.0000
445 D A -1.1999
446 A A -0.2497
447 V A 0.0000
448 A A 0.0000
449 L A 0.0000
450 M A -0.8856
451 H A -1.2326
452 P A -1.5769
453 D A -2.1586
454 G A -1.3944
455 S A 0.0000
456 A A 0.0000
457 V A 0.0000
458 V A 0.0000
459 V A 0.0000
460 V A 0.0000
461 L A 0.0000
462 N A 0.0000
463 R A -2.4412
464 S A -1.8195
465 S A -1.5916
466 K A -2.6094
467 D A -2.1700
468 V A -1.0189
469 P A -0.5216
470 L A 0.0000
471 T A 0.0000
472 I A 0.0000
473 K A -0.4748
474 D A 0.0000
475 P A -0.3225
476 A A -0.1806
477 V A 0.0834
478 G A -0.4431
479 F A -0.6702
480 L A 0.0000
481 E A -1.0252
482 T A -0.2327
483 I A 0.1394
484 S A 0.0000
485 P A -1.1423
486 G A -1.4315
487 Y A -0.8987
488 S A -0.6694
489 I A 0.0000
490 H A -0.3043
491 T A 0.0000
492 Y A 0.0000
493 L A 0.3620
494 W A 0.0000
495 H A 0.0775
496 R A -0.5335
497 Q A -1.2805
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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 -0.271 5.7771 View CSV PDB
4.5 -0.3093 5.6787 View CSV PDB
5.0 -0.3541 5.5707 View CSV PDB
5.5 -0.3965 5.4592 View CSV PDB
6.0 -0.4283 5.3467 View CSV PDB
6.5 -0.4442 5.234 View CSV PDB
7.0 -0.4452 5.122 View CSV PDB
7.5 -0.4367 5.0172 View CSV PDB
8.0 -0.4227 5.0173 View CSV PDB
8.5 -0.4039 5.1372 View CSV PDB
9.0 -0.3789 5.2954 View CSV PDB