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OPENSEQ.org
PPID - Peptidyl-prolyl cis-trans isomerase D
UniProt: P0ADY1 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13249
Length: 623 (613)
Sequences: 856
Seq/Len: 1.40
PPID
Paralog alert: 0.00 [within 20: 0.00] - ratio of genomes with paralogs
GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Scaled Score Prob
213_E 494_K 3.976 1.00
214_I 479_L 3.895 1.00
252_I 364_L 3.826 1.00
214_I 490_V 3.606 1.00
215_A 219_E 3.51 1.00
252_I 371_I 3.248 1.00
253_Q 364_L 3.245 1.00
210_T 213_E 2.885 1.00
288_E 293_G 2.86 1.00
318_L 323_I 2.698 1.00
494_K 497_Q 2.682 1.00
46_N 612_A 2.646 1.00
219_E 222_K 2.638 1.00
286_L 290_N 2.634 1.00
211_E 483_Q 2.593 1.00
221_N 224_N 2.586 1.00
225_F 489_L 2.569 1.00
487_K 491_Q 2.568 1.00
114_D 157_R 2.563 1.00
486_V 490_V 2.555 1.00
251_D 379_K 2.479 1.00
194_R 573_D 2.373 0.99
507_L 569_L 2.294 0.99
232_R 417_G 2.261 0.99
46_N 103_Q 2.246 0.99
232_R 418_W 2.233 0.99
267_Q 271_Y 2.208 0.99
294_D 297_A 2.174 0.99
2_M 5_L 2.129 0.99
203_L 499_A 2.115 0.99
321_A 328_K 2.078 0.98
267_Q 272_S 2.072 0.98
286_L 341_V 2.066 0.98
215_A 479_L 2.054 0.98
327_L 351_V 2.043 0.98
483_Q 487_K 2.038 0.98
92_L 96_I 2.037 0.98
2_M 6_R 2.03 0.98
193_V 544_A 2.011 0.98
372_A 376_K 1.999 0.98
344_S 347_G 1.979 0.97
267_Q 273_I 1.976 0.97
270_R 354_D 1.961 0.97
181_D 185_A 1.956 0.97
138_Y 153_A 1.954 0.97
279_E 283_K 1.947 0.97
194_R 571_A 1.946 0.97
233_V 437_I 1.932 0.97
271_Y 275_Q 1.932 0.97
325_D 329_N 1.924 0.97
285_V 302_K 1.891 0.96
249_D 368_R 1.876 0.96
478_P 482_V 1.866 0.96
285_V 298_L 1.863 0.96
248_S 251_D 1.86 0.96
129_V 134_D 1.859 0.96
269_T 273_I 1.852 0.96
371_I 375_V 1.851 0.96
255_Y 259_H 1.848 0.96
214_I 486_V 1.842 0.96
363_S 367_V 1.838 0.96
547_L 572_L 1.835 0.96
104_Y 107_E 1.831 0.96
43_A 92_L 1.827 0.95
283_K 287_D 1.823 0.95
273_I 349_L 1.821 0.95
269_T 272_S 1.818 0.95
272_S 354_D 1.786 0.95
176_L 179_E 1.785 0.95
253_Q 365_D 1.781 0.95
212_Q 216_S 1.754 0.94
320_D 328_K 1.753 0.94
314_D 354_D 1.718 0.93
323_I 327_L 1.715 0.93
393_D 397_N 1.708 0.93
253_Q 257_D 1.694 0.92
272_S 275_Q 1.683 0.92
297_A 300_K 1.681 0.92
270_R 273_I 1.681 0.92
303_S 313_G 1.676 0.92
110_L 134_D 1.661 0.91
270_R 314_D 1.651 0.91
286_L 350_I 1.65 0.91
62_E 65_R 1.631 0.90
287_D 290_N 1.628 0.90
216_S 219_E 1.626 0.90
268_R 357_Q 1.613 0.90
323_I 346_V 1.605 0.90
273_I 327_L 1.591 0.89
297_A 301_E 1.588 0.89
327_L 349_L 1.585 0.89
252_I 375_V 1.576 0.88
497_Q 501_V 1.563 0.88
231_F 471_H 1.557 0.88
486_V 489_L 1.545 0.87
271_Y 318_L 1.532 0.86
249_D 372_A 1.53 0.86
47_D 612_A 1.522 0.86
217_Y 221_N 1.514 0.85
234_S 469_S 1.513 0.85
264_T 267_Q 1.513 0.85
384_Y 463_A 1.504 0.85
270_R 355_D 1.502 0.85
272_S 276_T 1.501 0.85
229_E 473_P 1.497 0.85
232_R 470_E 1.496 0.85
342_I 351_V 1.494 0.84
315_M 349_L 1.488 0.84
267_Q 356_I 1.486 0.84
282_A 350_I 1.483 0.84
606_S 609_R 1.456 0.82
236_I 391_V 1.454 0.82
324_P 346_V 1.454 0.82
284_A 288_E 1.452 0.82
289_L 298_L 1.447 0.82
124_T 152_Y 1.446 0.82
247_V 375_V 1.439 0.81
58_A 95_L 1.437 0.81
273_I 276_T 1.433 0.81
479_L 488_A 1.43 0.81
177_K 589_V 1.422 0.80
55_F 59_F 1.417 0.80
54_Q 99_A 1.401 0.79
216_S 220_Q 1.4 0.79
263_F 362_K 1.399 0.79
263_F 367_V 1.396 0.78
55_F 91_V 1.393 0.78
218_Y 478_P 1.388 0.78
288_E 302_K 1.381 0.77
274_I 299_A 1.376 0.77
234_S 467_R 1.364 0.76
44_K 49_E 1.36 0.76
271_Y 274_I 1.346 0.75
142_L 145_M 1.345 0.75
192_V 574_E 1.343 0.75
89_Q 93_N 1.338 0.74
15_K 18_F 1.336 0.74
475_A 481_D 1.335 0.74
43_A 50_I 1.322 0.73
97_D 609_R 1.318 0.73
191_R 575_V 1.31 0.72
540_I 544_A 1.31 0.72
452_N 467_R 1.308 0.72
214_I 483_Q 1.305 0.72
495_A 499_A 1.304 0.72
317_W 355_D 1.299 0.71
226_M 474_E 1.296 0.71
364_L 368_R 1.295 0.71
5_L 9_A 1.291 0.70
335_K 355_D 1.289 0.70
365_D 368_R 1.287 0.70
501_V 505_K 1.284 0.70
500_K 504_E 1.274 0.69
453_S 466_L 1.273 0.69
269_T 356_I 1.271 0.69
149_A 153_A 1.264 0.68
105_A 161_T 1.264 0.68
264_T 273_I 1.262 0.68
230_Q 472_K 1.257 0.67
116_Q 164_Q 1.255 0.67
494_K 498_Q 1.255 0.67
214_I 481_D 1.243 0.66
2_M 11_S 1.241 0.66
305_D 308_S 1.238 0.66
508_V 512_A 1.235 0.65
338_L 350_I 1.235 0.65
344_S 349_L 1.221 0.64
547_L 558_G 1.22 0.64
45_V 103_Q 1.217 0.64
229_E 471_H 1.211 0.63
227_T 477_K 1.211 0.63
562_D 568_V 1.207 0.63
453_S 465_V 1.206 0.63
223_N 226_M 1.19 0.61
503_A 559_M 1.189 0.61
255_Y 371_I 1.183 0.61
296_A 299_A 1.183 0.61
51_S 54_Q 1.181 0.60
368_R 372_A 1.181 0.60
395_A 465_V 1.181 0.60
138_Y 149_A 1.179 0.60
190_Q 576_K 1.175 0.60
211_E 250_A 1.172 0.59
416_T 419_F 1.172 0.59
280_D 293_G 1.172 0.59
327_L 346_V 1.17 0.59
321_A 327_L 1.168 0.59
303_S 312_G 1.167 0.59
238_L 391_V 1.16 0.58
252_I 372_A 1.158 0.58
70_L 74_Y 1.155 0.58
562_D 566_N 1.152 0.58
346_V 351_V 1.15 0.57
125_P 128_Q 1.145 0.57
318_L 346_V 1.144 0.57
180_T 589_V 1.14 0.56
46_N 100_L 1.139 0.56
62_E 94_R 1.139 0.56
237_K 462_R 1.139 0.56
135_N 139_N 1.138 0.56
175_M 592_I 1.134 0.56
236_I 480_A 1.134 0.56
137_R 140_G 1.13 0.55
48_Q 99_A 1.13 0.55
346_V 349_L 1.129 0.55
295_F 350_I 1.128 0.55
477_K 485_Q 1.127 0.55
52_R 56_E 1.119 0.54
432_P 435_D 1.117 0.54
298_L 302_K 1.116 0.54
263_F 370_D 1.116 0.54
48_Q 103_Q 1.113 0.54
222_K 476_V 1.113 0.54
484_E 487_K 1.113 0.54
207_Q 498_Q 1.113 0.54
264_T 272_S 1.109 0.53
259_H 262_Q 1.108 0.53
276_T 285_V 1.108 0.53
544_A 570_L 1.107 0.53
257_D 417_G 1.106 0.53
459_D 462_R 1.1 0.52
256_Y 363_S 1.099 0.52
391_V 409_A 1.096 0.52
15_K 22_I 1.095 0.52
212_Q 215_A 1.093 0.52
227_T 475_A 1.091 0.51
104_Y 108_L 1.086 0.51
129_V 137_R 1.083 0.51
501_V 504_E 1.078 0.50
262_Q 374_K 1.076 0.50
271_Y 342_I 1.076 0.50
286_L 340_G 1.075 0.50
164_Q 191_R 1.074 0.50
271_Y 276_T 1.072 0.49
198_I 499_A 1.071 0.49
209_V 490_V 1.067 0.49
504_E 508_V 1.067 0.49
233_V 484_E 1.064 0.49
105_A 402_L 1.063 0.49
100_L 608_L 1.062 0.48
21_I 232_R 1.059 0.48
332_L 339_S 1.058 0.48
479_L 483_Q 1.057 0.48
27_L 30_V 1.054 0.48
56_E 60_N 1.053 0.48
498_Q 501_V 1.052 0.47
271_Y 323_I 1.051 0.47
54_Q 57_N 1.048 0.47
42_A 100_L 1.047 0.47
136_S 139_N 1.047 0.47
121_I 169_V 1.047 0.47
305_D 313_G 1.046 0.47
15_K 128_Q 1.043 0.47
248_S 254_S 1.043 0.47
273_I 346_V 1.038 0.46
231_F 468_I 1.038 0.46
324_P 327_L 1.037 0.46
502_D 505_K 1.033 0.46
264_T 269_T 1.031 0.45
106_R 475_A 1.031 0.45
93_N 609_R 1.03 0.45
28_T 31_S 1.028 0.45
41_Y 44_K 1.027 0.45
224_N 489_L 1.024 0.45
232_R 472_K 1.022 0.44
82_G 85_K 1.022 0.44
264_T 271_Y 1.022 0.44
21_I 25_F 1.014 0.44
164_Q 575_V 1.013 0.44
221_N 493_N 1.008 0.43
212_Q 480_A 1.007 0.43
17_I 147_M 1.001 0.42
2_M 14_L 1 0.42
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Scaled Score = (raw_score/average(raw_scores)) > 1 are listed. For all 3L/2 predictions, click on one of the links below.
HHsearch Results: GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled_score >1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov P(%) HHΔ   Acc
1m5yA40.63881000.624Contact Map0.546
3nrkA10.49921000.685Contact Map0.543
3rgcA20.40131000.731Contact Map0.588
3rfwA10.39171000.732Contact Map0.629
3tc5A10.22631000.813Contact Map0.5
1yw5A10.263299.90.821Contact Map0.656
2kgjA10.163799.90.828Contact Map0.429
1jnsA10.146199.90.834Contact Map0.392
2rqsA10.154199.90.834Contact Map0.471
1zk6A10.146199.90.835Contact Map0.55
Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.
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