Chain sequence(s) |
A: MAKLLALSLSFCFLLFGTCFALRDQPQQNECQLEHLNALKPDNRIKSEGGLIETWNPSNKQFACAGVALSRATLQPNSLLQTFLHQRSPEIFIQQGNGYFGMVFPGCVETFEEPRESEQGEGSKFSDSHQKVNRFREGDIIAVPTGVVFWMFNDQDTPVIAVSLIDTSSFQNQLDQMPRRFYLAGNHEQEFLRYQQEGSEEEENEGGNIFSGFKRDFLEDALNVNRRIVNKLQGRNEDEEKGAIVKVKGGLSITTPPEKEPRQKRGSRQEEDEDEDEKRQPHRHSRQDEDEDEKRQPHHHSRGGSKSQRDNGFEETICTARLHQNIGSSSSPDIYNPQAGRIKTVTSFDLQALRFLKLSAEFGSLHKNAMFVPHYNLNANSILYALKGRARLLYALNCKGNSVFDGELEAGRALIVPQNFAIAAKSLSDRFSYVAFKTNDRALINVCQKKLLQLLSIWKEMRPGSSSSTAPFHFLFHPAVTQTTKQQLDLVPNQYE
input PDB |
Selected Chain(s) | A |
Distance of aggregation | 10 Å |
FoldX usage | Yes |
pH calculations | Yes |
alphaCutter usage |
A: MAKLLALSLSFCFLLFGTCFALRDQPQQNECQLEHLNALKPDNRIKSEGGLIETWNPSNKQFACAGVALSRATLQPNSLLQTFLHQRSPEIFIQQGNGYFGMVFPGCVETFEEPRESEQGEGSKFSDSHQKVNRFREGDIIAVPTGVVFWMFNDQDTPVIAVSLIDTSSFQNQLDQMPRRFYLAGNHEQEFLRYQQEGSEEEENEGGNIFSGFKRDFLEDALNVNRRIVNKLQGRNEDEEKGAIVKVKGGLSITTPPEKEPRQKRGSRQEEDEDEDEKR QPHRHSRQDEDEDEKRQPHHHSRGGSKSQRDNG FEETICTARLHQNIGSSSSPDIYNPQAGRIKTVTSFDLQALRFLKLSAEFGSLHKNAMFVPHYNLNANSILYALKGRARLLYALNCKGNSVFDGELEAGRALIVPQNFAIAAKSLSDRFSYVAFKTNDRALINVCQKKLLQLLSIWKEMRPGSSSSTAPFHFLFHPAVTQTTKQQLDLVPNQYE(Red indicates removed residues) |
Dynamic mode | No |
Automated mutations | No |
Downloads | Download all the data |
Simulation log |
[INFO] Logger: Verbosity set to: 2 - [INFO] (00:00:02) [WARNING] runJob: Working directory already exists (possibly overwriting previous results -ow to prevent this behavior) (00:00:02) [INFO] runJob: Starting aggrescan3d job on: input.pdb with A chain(s) selected (00:00:02) [INFO] runJob: Creating pdb object from: input.pdb (00:00:02) [INFO] PDB: Running AlphaCutter (00:00:02) [INFO] PDB-Info: The input structure is globular. Max score is recommended for pH analysis. (00:00:21) [INFO] FoldX: Starting FoldX energy minimization (00:00:21) [INFO] Analysis: Starting Aggrescan4D on folded.pdb (00:15:21) [INFO] agg3D: Running pKa-ANI on /STORAGE/DATA/lcbio/aggreskan/fc2a65f3c3479cb/tmp/folded.pdb (00:15:21) [INFO] Main: Simulation completed successfully. (00:22:10) |
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 | 1.2900 | |
2 | A | A | 0.8005 | |
3 | K | A | 0.1124 | |
4 | L | A | 2.2528 | |
5 | L | A | 2.5390 | |
6 | A | A | 1.9939 | |
7 | L | A | 3.0321 | |
8 | S | A | 2.8822 | |
9 | L | A | 3.4852 | |
10 | S | A | 3.6056 | |
11 | F | A | 4.4753 | |
12 | C | A | 3.9249 | |
13 | F | A | 4.6051 | |
14 | L | A | 4.2969 | |
15 | L | A | 3.8985 | |
16 | F | A | 4.2021 | |
17 | G | A | 2.7540 | |
18 | T | A | 2.1646 | |
19 | C | A | 2.6706 | |
20 | F | A | 2.7867 | |
21 | A | A | 1.0930 | |
22 | L | A | 1.3236 | |
23 | R | A | -0.4829 | |
24 | D | A | -2.3702 | |
25 | Q | A | -2.5260 | |
26 | P | A | -2.2457 | |
27 | Q | A | -2.7091 | |
28 | Q | A | -2.7552 | |
29 | N | A | -2.6044 | |
30 | E | A | -2.3244 | |
31 | C | A | -1.9891 | |
32 | Q | A | -2.5257 | |
33 | L | A | 0.0000 | |
34 | E | A | -2.4366 | |
35 | H | A | -2.3023 | |
36 | L | A | 0.0000 | |
37 | N | A | -2.1714 | |
38 | A | A | -1.7872 | |
39 | L | A | -1.6571 | |
40 | K | A | -2.5609 | |
41 | P | A | 0.0000 | |
42 | D | A | -2.0589 | |
43 | N | A | -2.1007 | |
44 | R | A | -2.5456 | |
45 | I | A | 0.0000 | |
46 | K | A | -3.0997 | |
47 | S | A | -2.8622 | |
48 | E | A | -3.2248 | |
49 | G | A | 0.0000 | |
50 | G | A | -1.1436 | |
51 | L | A | -1.1474 | |
52 | I | A | 0.0000 | |
53 | E | A | 0.0000 | |
54 | T | A | 0.0000 | |
55 | W | A | 0.0000 | |
56 | N | A | -1.4203 | |
57 | P | A | -0.8198 | |
58 | S | A | -1.0701 | |
59 | N | A | -1.3406 | |
60 | K | A | -2.0174 | |
61 | Q | A | 0.0000 | |
62 | F | A | 0.0000 | |
63 | A | A | -1.1119 | |
64 | C | A | 0.0000 | |
65 | A | A | 0.0000 | |
66 | G | A | -1.0020 | |
67 | V | A | 0.0000 | |
68 | A | A | 0.0000 | |
69 | L | A | 0.0000 | |
70 | S | A | 0.0000 | |
71 | R | A | -0.3278 | |
72 | A | A | 0.0000 | |
73 | T | A | -0.2649 | |
74 | L | A | 0.0000 | |
75 | Q | A | -1.5655 | |
76 | P | A | -1.8625 | |
77 | N | A | -2.0506 | |
78 | S | A | 0.0000 | |
79 | L | A | -0.3877 | |
80 | L | A | 0.0000 | |
81 | Q | A | -0.0044 | |
82 | T | A | 0.3520 | |
83 | F | A | 0.0000 | |
84 | L | A | 0.7299 | |
85 | H | A | 0.0000 | |
86 | Q | A | -0.0915 | |
87 | R | A | 0.0000 | |
88 | S | A | 0.0000 | |
89 | P | A | 0.0000 | |
90 | E | A | 0.0000 | |
91 | I | A | 0.0000 | |
92 | F | A | 0.0000 | |
93 | I | A | 0.0000 | |
94 | Q | A | -1.1358 | |
95 | Q | A | -1.3867 | |
96 | G | A | 0.0000 | |
97 | N | A | -2.1415 | |
98 | G | A | 0.0000 | |
99 | Y | A | -0.5184 | |
100 | F | A | 0.0000 | |
101 | G | A | 0.0000 | |
102 | M | A | 0.0000 | |
103 | V | A | 0.7678 | |
104 | F | A | 0.0000 | |
105 | P | A | 0.1353 | |
106 | G | A | -0.1163 | |
107 | C | A | 0.4140 | |
108 | V | A | 0.7406 | |
109 | E | A | -1.5972 | |
110 | T | A | -1.1681 | |
111 | F | A | -1.5710 | |
112 | E | A | -2.7949 | |
113 | E | A | -2.9587 | |
114 | P | A | -2.8342 | |
115 | R | A | -4.0306 | |
116 | E | A | -3.7662 | |
117 | S | A | -3.5548 | |
118 | E | A | -3.4945 | |
119 | Q | A | -3.1415 | |
120 | G | A | -2.4877 | |
121 | E | A | -3.1783 | |
122 | G | A | -2.2402 | |
123 | S | A | -2.2822 | |
124 | K | A | -3.0253 | |
125 | F | A | -2.1390 | |
126 | S | A | -2.3897 | |
127 | D | A | -2.7305 | |
128 | S | A | -1.8752 | |
129 | H | A | -1.5449 | |
130 | Q | A | -1.0735 | |
131 | K | A | -1.5853 | |
132 | V | A | 0.0000 | |
133 | N | A | -0.9422 | |
134 | R | A | -1.4088 | |
135 | F | A | 0.0000 | |
136 | R | A | -3.1295 | |
137 | E | A | -2.9849 | |
138 | G | A | 0.0000 | |
139 | D | A | 0.0000 | |
140 | I | A | 0.0000 | |
141 | I | A | 0.0000 | |
142 | A | A | 0.0000 | |
143 | V | A | 0.0000 | |
144 | P | A | 0.0000 | |
145 | T | A | -0.2577 | |
146 | G | A | -0.1958 | |
147 | V | A | 0.0000 | |
148 | V | A | 0.6871 | |
149 | F | A | 0.0000 | |
150 | W | A | 0.3306 | |
151 | M | A | 0.0000 | |
152 | F | A | 0.0000 | |
153 | N | A | 0.0000 | |
154 | D | A | -1.7644 | |
155 | Q | A | -2.1404 | |
156 | D | A | -2.5124 | |
157 | T | A | -1.4638 | |
158 | P | A | -1.0957 | |
159 | V | A | 0.0000 | |
160 | I | A | -0.2464 | |
161 | A | A | 0.0000 | |
162 | V | A | 0.0000 | |
163 | S | A | 0.0000 | |
164 | L | A | 0.0000 | |
165 | I | A | 0.0000 | |
166 | D | A | 0.0000 | |
167 | T | A | 0.0000 | |
168 | S | A | 0.0000 | |
169 | S | A | 0.0000 | |
170 | F | A | 0.4688 | |
171 | Q | A | -0.0924 | |
172 | N | A | -0.9688 | |
173 | Q | A | -1.0639 | |
174 | L | A | -0.3918 | |
175 | D | A | -1.6194 | |
176 | Q | A | -1.8701 | |
177 | M | A | -0.6776 | |
178 | P | A | 0.0000 | |
179 | R | A | 0.0000 | |
180 | R | A | 0.0000 | |
181 | F | A | 0.8455 | |
182 | Y | A | 0.0000 | |
183 | L | A | 0.7112 | |
184 | A | A | 0.0722 | |
185 | G | A | -1.9107 | |
186 | N | A | -2.9223 | |
187 | H | A | 0.0000 | |
188 | E | A | -3.4775 | |
189 | Q | A | -1.8688 | |
190 | E | A | 0.0000 | |
191 | F | A | 0.0000 | |
192 | L | A | -1.9930 | |
193 | R | A | -2.6377 | |
194 | Y | A | -1.4953 | |
195 | Q | A | -2.1181 | |
196 | Q | A | -2.8158 | |
197 | E | A | -3.4605 | |
198 | G | A | -2.7875 | |
199 | S | A | -2.8755 | |
200 | E | A | -3.6112 | |
201 | E | A | -3.9255 | |
202 | E | A | -4.8904 | |
203 | E | A | -4.4417 | |
204 | N | A | -4.3559 | |
205 | E | A | -4.1574 | |
206 | G | A | -3.1571 | |
207 | G | A | -1.6429 | |
208 | N | A | 0.0000 | |
209 | I | A | 1.0426 | |
210 | F | A | 0.3505 | |
211 | S | A | -0.4832 | |
212 | G | A | -0.3560 | |
213 | F | A | 0.2402 | |
214 | K | A | -1.3279 | |
215 | R | A | -1.6785 | |
216 | D | A | -1.5974 | |
217 | F | A | 0.0501 | |
218 | L | A | 0.0000 | |
219 | E | A | -1.9156 | |
220 | D | A | -1.9965 | |
221 | A | A | -0.5547 | |
222 | L | A | -0.0500 | |
223 | N | A | -1.4796 | |
224 | V | A | -1.1146 | |
225 | N | A | -1.9810 | |
226 | R | A | -2.4044 | |
227 | R | A | -2.2976 | |
228 | I | A | -0.5777 | |
229 | V | A | 0.0000 | |
230 | N | A | -2.3418 | |
231 | K | A | -2.4823 | |
232 | L | A | -0.7307 | |
233 | Q | A | 0.0000 | |
234 | G | A | 0.0000 | |
235 | R | A | -3.2249 | |
236 | N | A | -3.4663 | |
237 | E | A | -4.1587 | |
238 | D | A | -4.7037 | |
239 | E | A | -5.1741 | |
240 | E | A | -4.7237 | |
241 | K | A | -3.9843 | |
242 | G | A | 0.0000 | |
243 | A | A | 0.0000 | |
244 | I | A | 0.0000 | |
245 | V | A | -1.4051 | |
246 | K | A | -1.9720 | |
247 | V | A | -1.2691 | |
248 | K | A | -2.0978 | |
249 | G | A | -1.4191 | |
250 | G | A | -1.1252 | |
251 | L | A | -0.1769 | |
252 | S | A | 0.2151 | |
253 | I | A | 0.0576 | |
254 | T | A | -0.8150 | |
255 | T | A | -0.9737 | |
256 | P | A | -1.3717 | |
257 | P | A | -2.0209 | |
258 | E | A | -3.4768 | |
259 | K | A | -3.9475 | |
260 | E | A | -4.0424 | |
261 | P | A | -3.8025 | |
262 | R | A | -4.4397 | |
263 | Q | A | -3.8084 | |
264 | K | A | -4.5227 | |
265 | R | A | -3.9553 | |
266 | G | A | -2.9054 | |
267 | S | A | -2.8377 | |
268 | R | A | -4.1323 | |
269 | Q | A | -4.9455 | |
270 | E | A | -4.8198 | |
271 | E | A | -4.4980 | |
272 | D | A | -4.7253 | |
273 | E | A | -5.3907 | |
274 | D | A | -5.1397 | |
275 | E | A | -5.4187 | |
276 | D | A | -5.5004 | |
277 | E | A | -5.1547 | |
278 | K | A | -4.7267 | |
279 | R | A | -3.9399 | |
313 | F | A | -1.2997 | |
314 | E | A | -2.2997 | |
315 | E | A | -2.4130 | |
316 | T | A | -1.0931 | |
317 | I | A | -0.4752 | |
318 | C | A | 0.0421 | |
319 | T | A | -0.2338 | |
320 | A | A | -0.6007 | |
321 | R | A | -0.9362 | |
322 | L | A | 0.0000 | |
323 | H | A | -0.8504 | |
324 | Q | A | -0.9070 | |
325 | N | A | -1.1573 | |
326 | I | A | 0.0000 | |
327 | G | A | 0.0000 | |
328 | S | A | -0.9260 | |
329 | S | A | -0.6880 | |
330 | S | A | -0.6371 | |
331 | S | A | -0.5393 | |
332 | P | A | -0.3131 | |
333 | D | A | -0.6148 | |
334 | I | A | -0.1570 | |
335 | Y | A | 0.5745 | |
336 | N | A | 0.0000 | |
337 | P | A | -0.7653 | |
338 | Q | A | -1.5428 | |
339 | A | A | 0.0000 | |
340 | G | A | -0.8411 | |
341 | R | A | -0.3790 | |
342 | I | A | 0.0000 | |
343 | K | A | -0.4329 | |
344 | T | A | -0.4669 | |
345 | V | A | 0.0000 | |
346 | T | A | -0.4189 | |
347 | S | A | -0.4770 | |
348 | F | A | 0.7855 | |
349 | D | A | -0.6848 | |
350 | L | A | 0.0000 | |
351 | Q | A | -0.9154 | |
352 | A | A | 0.0000 | |
353 | L | A | 0.0000 | |
354 | R | A | -1.6319 | |
355 | F | A | -0.9220 | |
356 | L | A | 0.0000 | |
357 | K | A | -0.7880 | |
358 | L | A | 0.0000 | |
359 | S | A | 0.0000 | |
360 | A | A | 0.0000 | |
361 | E | A | 0.0000 | |
362 | F | A | 0.0000 | |
363 | G | A | 0.0000 | |
364 | S | A | 0.0000 | |
365 | L | A | 0.0000 | |
366 | H | A | -3.0728 | |
367 | K | A | -3.4098 | |
368 | N | A | -2.0578 | |
369 | A | A | 0.0000 | |
370 | M | A | -0.4402 | |
371 | F | A | 0.0000 | |
372 | V | A | 0.0000 | |
373 | P | A | -0.1705 | |
374 | H | A | 0.0000 | |
375 | Y | A | 0.0000 | |
376 | N | A | 0.0000 | |
377 | L | A | 0.2575 | |
378 | N | A | -0.3724 | |
379 | A | A | 0.0000 | |
380 | N | A | -0.7511 | |
381 | S | A | 0.0000 | |
382 | I | A | 0.0000 | |
383 | L | A | 0.0000 | |
384 | Y | A | 0.0000 | |
385 | A | A | 0.0000 | |
386 | L | A | 0.0000 | |
387 | K | A | -1.9860 | |
388 | G | A | -2.2877 | |
389 | R | A | -3.2444 | |
390 | A | A | 0.0000 | |
391 | R | A | -2.7805 | |
392 | L | A | 0.0000 | |
393 | L | A | -0.4497 | |
394 | Y | A | 0.0000 | |
395 | A | A | 0.0000 | |
396 | L | A | -0.2021 | |
397 | N | A | -0.9668 | |
398 | C | A | -0.9937 | |
399 | K | A | -1.9327 | |
400 | G | A | -1.1063 | |
401 | N | A | -1.4587 | |
402 | S | A | -0.5243 | |
403 | V | A | 0.8624 | |
404 | F | A | -0.2723 | |
405 | D | A | -1.9057 | |
406 | G | A | -2.5812 | |
407 | E | A | -3.5572 | |
408 | L | A | 0.0000 | |
409 | E | A | -3.2110 | |
410 | A | A | -1.8333 | |
411 | G | A | -1.4737 | |
412 | R | A | -2.2554 | |
413 | A | A | 0.0000 | |
414 | L | A | 0.0000 | |
415 | I | A | 0.0000 | |
416 | V | A | 0.0000 | |
417 | P | A | 0.0000 | |
418 | Q | A | -1.3191 | |
419 | N | A | -1.4045 | |
420 | F | A | 0.0000 | |
421 | A | A | 0.0000 | |
422 | I | A | 0.0000 | |
423 | A | A | 0.0000 | |
424 | A | A | 0.0000 | |
425 | K | A | -1.4286 | |
426 | S | A | 0.0000 | |
427 | L | A | -1.9507 | |
428 | S | A | -2.6910 | |
429 | D | A | -3.5198 | |
430 | R | A | -3.3554 | |
431 | F | A | 0.0000 | |
432 | S | A | 0.0000 | |
433 | Y | A | 0.0000 | |
434 | V | A | 0.0000 | |
435 | A | A | 0.0000 | |
436 | F | A | 0.0000 | |
437 | K | A | 0.0000 | |
438 | T | A | 0.0000 | |
439 | N | A | -0.7517 | |
440 | D | A | 0.0000 | |
441 | R | A | -0.8339 | |
442 | A | A | -0.0426 | |
443 | L | A | 1.1573 | |
444 | I | A | 0.9499 | |
445 | N | A | -0.1495 | |
446 | V | A | 0.0000 | |
447 | C | A | -0.8098 | |
448 | Q | A | -0.9023 | |
449 | K | A | -1.5052 | |
450 | K | A | -1.5995 | |
451 | L | A | -0.1702 | |
452 | L | A | 0.1656 | |
453 | Q | A | -0.7260 | |
454 | L | A | 0.5387 | |
455 | L | A | 0.5086 | |
456 | S | A | -0.0855 | |
457 | I | A | 0.5760 | |
458 | W | A | 0.1668 | |
459 | K | A | -2.1442 | |
460 | E | A | -2.2666 | |
461 | M | A | -1.1897 | |
462 | R | A | -2.5956 | |
463 | P | A | -2.0210 | |
464 | G | A | -1.4225 | |
465 | S | A | -1.1101 | |
466 | S | A | -0.6257 | |
467 | S | A | -0.5547 | |
468 | S | A | -0.4396 | |
469 | T | A | 0.0092 | |
470 | A | A | 0.3758 | |
471 | P | A | 1.0045 | |
472 | F | A | 2.3610 | |
473 | H | A | 1.1606 | |
474 | F | A | 2.6133 | |
475 | L | A | 2.5317 | |
476 | F | A | 1.5086 | |
477 | H | A | -0.0096 | |
478 | P | A | -0.2673 | |
479 | A | A | -0.3843 | |
480 | V | A | 0.1102 | |
481 | T | A | -0.5756 | |
482 | Q | A | -1.2899 | |
483 | T | A | -1.0493 | |
484 | T | A | -1.4202 | |
485 | K | A | -2.3076 | |
486 | Q | A | -1.5907 | |
487 | Q | A | -0.8544 | |
488 | L | A | -0.4888 | |
489 | D | A | -0.4276 | |
490 | L | A | 0.0000 | |
491 | V | A | 0.0359 | |
492 | P | A | -0.9343 | |
493 | N | A | -1.4355 | |
494 | Q | A | -1.1293 | |
495 | Y | A | -0.3252 | |
496 | E | A | -1.5657 |
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 | -0.5834 | 8.7694 | View | CSV | PDB |
4.5 | -0.671 | 8.7694 | View | CSV | PDB |
5.0 | -0.7798 | 8.7694 | View | CSV | PDB |
5.5 | -0.8874 | 8.7694 | View | CSV | PDB |
6.0 | -0.972 | 8.7694 | View | CSV | PDB |
6.5 | -1.0197 | 8.7694 | View | CSV | PDB |
7.0 | -1.031 | 8.7694 | View | CSV | PDB |
7.5 | -1.0177 | 8.7694 | View | CSV | PDB |
8.0 | -0.9913 | 8.7694 | View | CSV | PDB |
8.5 | -0.9566 | 8.7694 | View | CSV | PDB |
9.0 | -0.9138 | 8.7694 | View | CSV | PDB |