Chain sequence(s) |
A: MAKLVLSLCFLLFSGCFALREQAQQNECQIQKLNALKPDNRIESEGGFIETWNPNNKPFQCAGVALSRCTLNRNALRRPSYTNGPQEIYIQQGNGIFGMIFPGCPSTYQEPQESQQRGRSQRPQDRHQKVHRFREGDLIAVPTGVAWWMYNNEDTPVVAVSIIDTNSLENQLDQMPRRFYLAGNQEQEFLKYQQQQQGGSQSQKGKQQEEENEGSNILSGFAPEFLKEAFGVNMQIVRNLQGENEEEDSGAIVTVKGGLRVTAPAMRKPQQEEDDDDEEEQPQCVETDKGCQRQSKRSRNGIDETICTMRLRQNIGQNSSPDIYNPQAGSITTATSLDFPALWLLKLSAQYGSLRKNAMFVPHYTLNANSIIYALNGRALVQVVNCNGERVFDGELQEGGVLIVPQNFAVAAKSQSDNFEYVSFKTNDRPSIGNLAGANSLLNALPEEVIQHTFNLKSQQARQVKNNNPFSFLVPPQESQRRAVA
input PDB |
Selected Chain(s) | A |
Distance of aggregation | 10 Å |
FoldX usage | Yes |
pH calculations | Yes |
alphaCutter usage |
A: MAKLVLSLCFLLFSGCFALREQAQ QNECQIQKLNALKPDNRIESEGGFIETWNPNNKPFQCAGVALSRCTLNRNALRRPSYTNGPQEIYIQQGNGIFGMIFPGCPSTYQEPQESQQRGRSQRPQDRHQKVHRFREGDLIAVPTGVAWWMYNNEDTPVVAVSIIDTNSLENQLDQMPRRFYLAGNQEQEFLKYQQQQQGGSQSQKGKQQEEENEGSNILSGFAPEFLKEAFGVNMQIVRNLQGENEEEDSGAIVTVKGGLRVTAPAMRKPQQEEDDDDEEEQPQCVETDKGCQRQSKRSRNGIDETICTMRLRQNIGQNSSPDIYNPQAGSITTATSLDFPALWLLKLSAQYGSLRKNAMFVPHYTLNANSIIYALNGRALVQVVNCNGERVFDGELQEGGVLIVPQNFAVAAKSQSDNFEYVSFKTNDRPSIGNLAGANSLLNALPEEVIQHTFNLKSQQARQVKNNNPFSFLVPPQESQRRAVA(Red indicates removed residues) |
Dynamic mode | No |
Automated mutations | No |
Downloads | Download all the data |
Simulation log |
[INFO] Logger: Verbosity set to: 2 - [INFO] (00:00:00) [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: Running AlphaCutter (00:00:01) [INFO] PDB-Info: The input structure is globular. Max score is recommended for pH analysis. (00:00:11) [INFO] FoldX: Starting FoldX energy minimization (00:00:11) [INFO] Analysis: Starting Aggrescan4D on folded.pdb (00:09:26) [INFO] agg3D: Running pKa-ANI on /STORAGE/DATA/lcbio/aggreskan/ce587860f162843/tmp/folded.pdb (00:09:26) [INFO] Main: Simulation completed successfully. (00:16:18) |
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 |
---|---|---|---|---|
25 | Q | A | -2.3650 | |
26 | N | A | -2.8819 | |
27 | E | A | -2.9655 | |
28 | C | A | -1.7283 | |
29 | Q | A | -2.5878 | |
30 | I | A | 0.0000 | |
31 | Q | A | -2.8659 | |
32 | K | A | -3.3827 | |
33 | L | A | 0.0000 | |
34 | N | A | -2.1333 | |
35 | A | A | -1.3689 | |
36 | L | A | -1.3746 | |
37 | K | A | -2.4718 | |
38 | P | A | -2.0362 | |
39 | D | A | -2.4404 | |
40 | N | A | -2.3363 | |
41 | R | A | -2.6646 | |
42 | I | A | 0.0000 | |
43 | E | A | -3.0977 | |
44 | S | A | 0.0000 | |
45 | E | A | -3.1121 | |
46 | G | A | 0.0000 | |
47 | G | A | -1.2941 | |
48 | F | A | -1.2791 | |
49 | I | A | 0.0000 | |
50 | E | A | -1.7699 | |
51 | T | A | 0.0000 | |
52 | W | A | 0.0000 | |
53 | N | A | -1.3171 | |
54 | P | A | 0.0000 | |
55 | N | A | -1.4376 | |
56 | N | A | -1.1703 | |
57 | K | A | -1.7949 | |
58 | P | A | -1.1784 | |
59 | F | A | 0.0000 | |
60 | Q | A | -1.4041 | |
61 | C | A | -1.0796 | |
62 | A | A | 0.0000 | |
63 | G | A | 0.0000 | |
64 | V | A | 0.0000 | |
65 | A | A | 0.0000 | |
66 | L | A | 0.0000 | |
67 | S | A | 0.0000 | |
68 | R | A | -0.4906 | |
69 | C | A | 0.0000 | |
70 | T | A | -0.3642 | |
71 | L | A | 0.0000 | |
72 | N | A | -2.2889 | |
73 | R | A | -3.2822 | |
74 | N | A | -2.2994 | |
75 | A | A | 0.0000 | |
76 | L | A | -0.2826 | |
77 | R | A | 0.0000 | |
78 | R | A | 0.0000 | |
79 | P | A | 0.4410 | |
80 | S | A | 0.0000 | |
81 | Y | A | 0.4398 | |
82 | T | A | 0.0000 | |
83 | N | A | -0.6842 | |
84 | G | A | 0.0000 | |
85 | P | A | 0.0000 | |
86 | Q | A | 0.0000 | |
87 | E | A | 0.0000 | |
88 | I | A | 0.0000 | |
89 | Y | A | 0.0000 | |
90 | I | A | 0.0000 | |
91 | Q | A | -1.0861 | |
92 | Q | A | -1.2639 | |
93 | G | A | 0.0000 | |
94 | N | A | -1.7329 | |
95 | G | A | 0.0000 | |
96 | I | A | 0.0000 | |
97 | F | A | 0.0000 | |
98 | G | A | 0.0000 | |
99 | M | A | 0.0000 | |
100 | I | A | 0.7040 | |
101 | F | A | 0.0000 | |
102 | P | A | -0.1100 | |
103 | G | A | -0.3435 | |
104 | C | A | -0.1063 | |
105 | P | A | -0.7079 | |
106 | S | A | -1.5473 | |
107 | T | A | -1.1567 | |
108 | Y | A | -1.8328 | |
109 | Q | A | -3.1200 | |
110 | E | A | -2.8775 | |
111 | P | A | -2.2356 | |
112 | Q | A | -3.2410 | |
113 | E | A | -3.3314 | |
114 | S | A | -2.5046 | |
115 | Q | A | -3.6286 | |
116 | Q | A | -3.5159 | |
117 | R | A | -3.5199 | |
118 | G | A | -2.9479 | |
119 | R | A | -3.7146 | |
120 | S | A | -2.8436 | |
121 | Q | A | -3.4513 | |
122 | R | A | -3.5014 | |
123 | P | A | -2.7654 | |
124 | Q | A | -3.8837 | |
125 | D | A | -3.8890 | |
126 | R | A | -3.7787 | |
127 | H | A | -2.0871 | |
128 | Q | A | -1.0902 | |
129 | K | A | -1.1790 | |
130 | V | A | 0.0000 | |
131 | H | A | -0.6366 | |
132 | R | A | -0.7162 | |
133 | F | A | 0.0000 | |
134 | R | A | -2.2937 | |
135 | E | A | -2.7883 | |
136 | G | A | 0.0000 | |
137 | D | A | 0.0000 | |
138 | L | A | 0.0000 | |
139 | I | A | 0.0000 | |
140 | A | A | 0.0000 | |
141 | V | A | 0.0000 | |
142 | P | A | 0.0000 | |
143 | T | A | -0.4464 | |
144 | G | A | -0.3122 | |
145 | V | A | 0.0000 | |
146 | A | A | 0.5093 | |
147 | W | A | 0.0000 | |
148 | W | A | 0.3399 | |
149 | M | A | 0.0000 | |
150 | Y | A | 0.0000 | |
151 | N | A | 0.0000 | |
152 | N | A | -2.0697 | |
153 | E | A | -2.5451 | |
154 | D | A | -3.0519 | |
155 | T | A | -1.8296 | |
156 | P | A | -1.6249 | |
157 | V | A | 0.0000 | |
158 | V | A | -0.3748 | |
159 | A | A | 0.0000 | |
160 | V | A | 0.0000 | |
161 | S | A | 0.0000 | |
162 | I | A | 0.0000 | |
163 | I | A | 0.0000 | |
164 | D | A | 0.0000 | |
165 | T | A | 0.0000 | |
166 | N | A | -1.5828 | |
167 | S | A | -0.8509 | |
168 | L | A | 0.3148 | |
169 | E | A | -1.1036 | |
170 | N | A | -1.1297 | |
171 | Q | A | -1.0610 | |
172 | L | A | 0.0585 | |
173 | D | A | -1.1264 | |
174 | Q | A | -1.6897 | |
175 | M | A | -0.8463 | |
176 | P | A | 0.0000 | |
177 | R | A | -0.4509 | |
178 | R | A | 0.0000 | |
179 | F | A | 0.6926 | |
180 | Y | A | 0.0000 | |
181 | L | A | 0.8703 | |
182 | A | A | 0.2618 | |
183 | G | A | 0.0000 | |
184 | N | A | -2.4607 | |
185 | Q | A | 0.0000 | |
186 | E | A | -2.7978 | |
187 | Q | A | -1.4980 | |
188 | E | A | 0.0000 | |
189 | F | A | 0.0000 | |
190 | L | A | -0.8076 | |
191 | K | A | -1.7683 | |
192 | Y | A | 0.0000 | |
193 | Q | A | -2.2948 | |
194 | Q | A | -2.7811 | |
195 | Q | A | -3.1284 | |
196 | Q | A | -3.2496 | |
197 | Q | A | -3.1679 | |
198 | G | A | -2.6099 | |
199 | G | A | -1.8475 | |
200 | S | A | -1.5802 | |
201 | Q | A | -2.3681 | |
202 | S | A | -2.1127 | |
203 | Q | A | -2.9611 | |
204 | K | A | -4.0636 | |
205 | G | A | -3.9939 | |
206 | K | A | -4.7499 | |
207 | Q | A | -4.9415 | |
208 | Q | A | -5.3406 | |
209 | E | A | -5.5484 | |
210 | E | A | -5.4216 | |
211 | E | A | -5.1133 | |
212 | N | A | -4.4425 | |
213 | E | A | -4.4269 | |
214 | G | A | -2.4692 | |
215 | S | A | -1.3587 | |
216 | N | A | 0.0000 | |
217 | I | A | 1.0252 | |
218 | L | A | 0.5023 | |
219 | S | A | -0.2956 | |
220 | G | A | 0.2565 | |
221 | F | A | 1.2043 | |
222 | A | A | 0.4209 | |
223 | P | A | -0.9283 | |
224 | E | A | -1.5439 | |
225 | F | A | 0.6362 | |
226 | L | A | 0.0000 | |
227 | K | A | -1.6745 | |
228 | E | A | -1.7954 | |
229 | A | A | -0.1921 | |
230 | F | A | 0.7526 | |
231 | G | A | -0.3646 | |
232 | V | A | -0.5937 | |
233 | N | A | -1.7583 | |
234 | M | A | -1.8310 | |
235 | Q | A | -2.1970 | |
236 | I | A | -0.7981 | |
237 | V | A | 0.0000 | |
238 | R | A | -3.4276 | |
239 | N | A | -2.8099 | |
240 | L | A | -0.9925 | |
241 | Q | A | 0.0000 | |
242 | G | A | 0.0000 | |
243 | E | A | -3.8631 | |
244 | N | A | -3.7454 | |
245 | E | A | -3.5964 | |
246 | E | A | -4.2368 | |
247 | E | A | -4.2866 | |
248 | D | A | -4.2129 | |
249 | S | A | 0.0000 | |
250 | G | A | 0.0000 | |
251 | A | A | 0.0000 | |
252 | I | A | 0.0000 | |
253 | V | A | -0.8050 | |
254 | T | A | -1.2154 | |
255 | V | A | -1.3070 | |
256 | K | A | -1.8216 | |
257 | G | A | -1.5094 | |
258 | G | A | -1.5328 | |
259 | L | A | -0.9930 | |
260 | R | A | -1.5395 | |
261 | V | A | -0.8818 | |
262 | T | A | -1.3525 | |
263 | A | A | -0.4413 | |
264 | P | A | -0.3696 | |
265 | A | A | -0.2720 | |
266 | M | A | -0.6216 | |
267 | R | A | -2.9917 | |
268 | K | A | -3.3936 | |
269 | P | A | -3.1993 | |
270 | Q | A | -3.8752 | |
271 | Q | A | -4.3864 | |
272 | E | A | -4.5333 | |
273 | E | A | -5.3046 | |
274 | D | A | -5.4220 | |
275 | D | A | -5.0150 | |
276 | D | A | -5.0648 | |
277 | D | A | -5.8724 | |
278 | E | A | -5.9127 | |
279 | E | A | -5.2774 | |
280 | E | A | -5.0287 | |
281 | Q | A | -3.9439 | |
282 | P | A | -2.8404 | |
283 | Q | A | -2.0448 | |
284 | C | A | -0.6803 | |
285 | V | A | -0.2016 | |
286 | E | A | -2.1011 | |
287 | T | A | -2.0522 | |
288 | D | A | -3.1376 | |
289 | K | A | -3.0537 | |
290 | G | A | -2.1459 | |
291 | C | A | -1.4154 | |
292 | Q | A | -2.5946 | |
293 | R | A | -3.1906 | |
294 | Q | A | -3.2171 | |
295 | S | A | -2.9803 | |
296 | K | A | -4.1502 | |
297 | R | A | -3.6098 | |
298 | S | A | -3.2744 | |
299 | R | A | -3.8401 | |
300 | N | A | -3.2963 | |
301 | G | A | -1.6405 | |
302 | I | A | -0.2263 | |
303 | D | A | -2.2862 | |
304 | E | A | -2.6592 | |
305 | T | A | -0.5681 | |
306 | I | A | 0.4313 | |
307 | C | A | 0.0362 | |
308 | T | A | -0.7919 | |
309 | M | A | 0.0000 | |
310 | R | A | -0.9059 | |
311 | L | A | 0.0000 | |
312 | R | A | -0.7969 | |
313 | Q | A | -1.0759 | |
314 | N | A | -1.5372 | |
315 | I | A | 0.0000 | |
316 | G | A | 0.0000 | |
317 | Q | A | -2.1498 | |
318 | N | A | -2.1956 | |
319 | S | A | -1.6443 | |
320 | S | A | -0.9872 | |
321 | P | A | -0.9693 | |
322 | D | A | -1.3865 | |
323 | I | A | 0.1395 | |
324 | Y | A | 0.8386 | |
325 | N | A | 0.1882 | |
326 | P | A | -0.5288 | |
327 | Q | A | -1.3557 | |
328 | A | A | 0.0000 | |
329 | G | A | 0.0000 | |
330 | S | A | -0.2214 | |
331 | I | A | 0.0000 | |
332 | T | A | 0.0000 | |
333 | T | A | -0.7457 | |
334 | A | A | 0.0000 | |
335 | T | A | -0.4681 | |
336 | S | A | 0.0000 | |
337 | L | A | 0.0752 | |
338 | D | A | -0.9569 | |
339 | F | A | 0.0000 | |
340 | P | A | -0.3495 | |
341 | A | A | 0.0000 | |
342 | L | A | 0.0000 | |
343 | W | A | 0.7552 | |
344 | L | A | 0.6075 | |
345 | L | A | 0.0000 | |
346 | K | A | -0.3766 | |
347 | L | A | 0.0000 | |
348 | S | A | 0.0000 | |
349 | A | A | 0.0000 | |
350 | Q | A | 0.0000 | |
351 | Y | A | 0.0000 | |
352 | G | A | 0.0000 | |
353 | S | A | -0.7801 | |
354 | L | A | 0.0000 | |
355 | R | A | -3.3564 | |
356 | K | A | -4.0441 | |
357 | N | A | -2.9048 | |
358 | A | A | 0.0000 | |
359 | M | A | -0.6315 | |
360 | F | A | 0.0000 | |
361 | V | A | 0.0000 | |
362 | P | A | 0.1592 | |
363 | H | A | 0.0000 | |
364 | Y | A | 0.0819 | |
365 | T | A | 0.0000 | |
366 | L | A | 0.1270 | |
367 | N | A | -0.8513 | |
368 | A | A | 0.0000 | |
369 | N | A | -0.6837 | |
370 | S | A | 0.0000 | |
371 | I | A | 0.0000 | |
372 | I | A | 0.1922 | |
373 | Y | A | 0.0000 | |
374 | A | A | 0.0000 | |
375 | L | A | 0.0000 | |
376 | N | A | -1.9610 | |
377 | G | A | -2.6480 | |
378 | R | A | -3.4507 | |
379 | A | A | 0.0000 | |
380 | L | A | -1.2720 | |
381 | V | A | 0.0000 | |
382 | Q | A | -1.7995 | |
383 | V | A | 0.0000 | |
384 | V | A | -1.7876 | |
385 | N | A | -1.7124 | |
386 | C | A | -0.5872 | |
387 | N | A | -1.9004 | |
388 | G | A | -1.7289 | |
389 | E | A | -3.1091 | |
390 | R | A | -3.6364 | |
391 | V | A | 0.0000 | |
392 | F | A | 0.0000 | |
393 | D | A | -2.9347 | |
394 | G | A | -1.6660 | |
395 | E | A | -2.0766 | |
396 | L | A | 0.0000 | |
397 | Q | A | -3.0263 | |
398 | E | A | -2.7397 | |
399 | G | A | -1.6662 | |
400 | G | A | 0.0000 | |
401 | V | A | 0.0000 | |
402 | L | A | 0.0000 | |
403 | I | A | 0.0000 | |
404 | V | A | 0.0000 | |
405 | P | A | -0.5386 | |
406 | Q | A | -1.2727 | |
407 | N | A | -1.0983 | |
408 | F | A | -0.4420 | |
409 | A | A | -0.3203 | |
410 | V | A | 0.0000 | |
411 | A | A | -0.3257 | |
412 | A | A | -0.7427 | |
413 | K | A | -1.7179 | |
414 | S | A | 0.0000 | |
415 | Q | A | -2.7439 | |
416 | S | A | -3.0177 | |
417 | D | A | -3.5792 | |
418 | N | A | -2.9689 | |
419 | F | A | 0.0000 | |
420 | E | A | 0.0000 | |
421 | Y | A | 0.0000 | |
422 | V | A | 0.0000 | |
423 | S | A | 0.0000 | |
424 | F | A | 0.0000 | |
425 | K | A | 0.0000 | |
426 | T | A | -0.9163 | |
427 | N | A | -0.9930 | |
428 | D | A | 0.0000 | |
429 | R | A | -1.5194 | |
430 | P | A | -0.8766 | |
431 | S | A | -0.1343 | |
432 | I | A | 0.4290 | |
433 | G | A | 0.4311 | |
434 | N | A | 0.0000 | |
435 | L | A | 0.7314 | |
436 | A | A | 0.0823 | |
437 | G | A | 0.0000 | |
438 | A | A | -0.9304 | |
439 | N | A | -0.9860 | |
440 | S | A | 0.0000 | |
441 | L | A | 1.1053 | |
442 | L | A | 0.8570 | |
443 | N | A | -0.4623 | |
444 | A | A | 0.2994 | |
445 | L | A | 0.6610 | |
446 | P | A | -0.5445 | |
447 | E | A | -1.7366 | |
448 | E | A | -2.2491 | |
449 | V | A | -0.3493 | |
450 | I | A | 0.0000 | |
451 | Q | A | -1.9574 | |
452 | H | A | -1.5392 | |
453 | T | A | -0.2278 | |
454 | F | A | 0.2709 | |
455 | N | A | -1.3777 | |
456 | L | A | -1.6703 | |
457 | K | A | -3.1397 | |
458 | S | A | -2.8917 | |
459 | Q | A | -3.0182 | |
460 | Q | A | -3.0717 | |
461 | A | A | 0.0000 | |
462 | R | A | -3.9834 | |
463 | Q | A | -3.3741 | |
464 | V | A | -1.3182 | |
465 | K | A | -2.0307 | |
466 | N | A | -2.8271 | |
467 | N | A | -2.6069 | |
468 | N | A | -1.4561 | |
469 | P | A | -0.9730 | |
470 | F | A | -0.1628 | |
471 | S | A | -0.0538 | |
472 | F | A | 0.5590 | |
473 | L | A | 0.0000 | |
474 | V | A | -0.3360 | |
475 | P | A | 0.0000 | |
476 | P | A | -2.3066 | |
477 | Q | A | -2.8548 | |
478 | E | A | -3.5153 | |
479 | S | A | -2.5808 | |
480 | Q | A | -2.4347 | |
481 | R | A | -3.1233 | |
482 | R | A | -2.7529 | |
483 | A | A | -0.8494 | |
484 | V | A | 0.6154 | |
485 | A | A | -0.1571 |
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 | -0.9281 | 4.5542 | View | CSV | PDB |
4.5 | -1.0151 | 4.3017 | View | CSV | PDB |
5.0 | -1.1239 | 3.9704 | View | CSV | PDB |
5.5 | -1.2356 | 3.6214 | View | CSV | PDB |
6.0 | -1.3317 | 3.5313 | View | CSV | PDB |
6.5 | -1.3985 | 3.4876 | View | CSV | PDB |
7.0 | -1.4324 | 3.4637 | View | CSV | PDB |
7.5 | -1.4419 | 3.4538 | View | CSV | PDB |
8.0 | -1.4374 | 3.4503 | View | CSV | PDB |
8.5 | -1.4235 | 3.4492 | View | CSV | PDB |
9.0 | -1.4006 | 3.4488 | View | CSV | PDB |