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OPENSEQ.org
BAMA - Outer membrane protein assembly factor BamA
UniProt: P0A940 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG12676
Length: 810 (772)
Sequences: 1044
Seq/Len: 1.35
BAMA
Paralog alert: 0.05 [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
329_N 332_D 4.126 1.00
197_F 226_L 3.791 1.00
490_F 510_G 3.755 1.00
396_E 419_K 3.751 1.00
269_S 336_K 3.614 1.00
265_Q 295_L 3.176 1.00
353_R 415_V 2.944 1.00
329_N 336_K 2.859 1.00
631_G 716_L 2.689 1.00
354_F 365_L 2.686 1.00
660_V 668_I 2.643 1.00
182_I 193_L 2.635 1.00
187_A 235_Y 2.528 1.00
491_Y 509_Y 2.471 1.00
612_T 652_F 2.458 1.00
488_R 514_T 2.44 1.00
223_L 258_V 2.424 1.00
531_Y 568_D 2.424 1.00
183_V 259_N 2.415 1.00
457_G 472_S 2.385 0.99
475_N 478_F 2.364 0.99
314_R 380_D 2.36 0.99
99_F 110_L 2.341 0.99
486_G 514_T 2.33 0.99
350_R 413_D 2.327 0.99
269_S 334_T 2.294 0.99
197_F 258_V 2.294 0.99
445_Q 457_G 2.292 0.99
370_R 521_E 2.281 0.99
227_R 231_L 2.249 0.99
270_G 336_K 2.246 0.99
454_Y 473_V 2.24 0.99
785_F 802_F 2.217 0.99
241_D 261_T 2.194 0.99
512_D 530_G 2.167 0.99
264_D 333_K 2.163 0.99
484_S 516_G 2.154 0.99
530_G 571_T 2.07 0.98
739_W 768_M 2.059 0.98
137_L 151_V 2.051 0.98
454_Y 475_N 2.05 0.98
443_G 459_N 2.026 0.98
77_V 86_V 2.009 0.98
41_A 45_S 2.006 0.98
636_G 652_F 2.001 0.98
95_A 164_D 1.993 0.97
627_W 718_F 1.954 0.97
32_E 87_Q 1.925 0.97
46_M 86_V 1.924 0.97
638_G 646_M 1.889 0.96
182_I 194_I 1.884 0.96
188_F 229_Y 1.878 0.96
34_L 42_A 1.865 0.96
582_D 588_T 1.849 0.96
276_N 343_A 1.839 0.95
55_N 58_D 1.8 0.95
154_V 168_V 1.788 0.94
490_F 532_V 1.788 0.94
608_Y 650_E 1.785 0.94
102_N 171_E 1.779 0.94
574_Y 597_G 1.779 0.94
429_G 441_Q 1.769 0.94
237_R 266_Y 1.769 0.94
529_L 570_F 1.766 0.94
314_R 378_G 1.762 0.94
355_E 417_K 1.754 0.94
720_T 735_T 1.741 0.93
102_N 110_L 1.727 0.93
327_E 336_K 1.726 0.93
578_Y 591_S 1.719 0.93
281_S 285_E 1.718 0.93
714_A 741_M 1.709 0.92
386_K 390_N 1.708 0.92
396_E 421_R 1.707 0.92
232_D 297_N 1.701 0.92
768_M 792_K 1.696 0.92
185_N 190_T 1.686 0.92
27_K 82_D 1.685 0.92
100_S 168_V 1.677 0.91
593_V 613_L 1.671 0.91
31_F 42_A 1.646 0.90
141_Y 171_E 1.643 0.90
48_V 62_T 1.638 0.90
329_N 334_T 1.63 0.90
203_V 207_N 1.615 0.89
237_R 330_D 1.614 0.89
597_G 611_V 1.608 0.89
99_F 167_L 1.599 0.89
28_D 83_T 1.597 0.89
182_I 185_N 1.596 0.89
183_V 257_T 1.588 0.88
350_R 405_V 1.583 0.88
654_A 744_V 1.581 0.88
591_S 617_T 1.575 0.88
311_L 315_Y 1.561 0.87
232_D 299_T 1.558 0.87
194_I 201_D 1.552 0.87
239_N 261_T 1.545 0.86
74_D 89_K 1.542 0.86
78_L 87_Q 1.538 0.86
570_F 601_I 1.525 0.85
393_G 421_R 1.523 0.85
427_N 443_G 1.517 0.85
357_N 362_D 1.51 0.85
125_L 130_I 1.51 0.85
4_K 12_L 1.503 0.84
424_G 446_Q 1.499 0.84
722_T 735_T 1.498 0.84
528_G 573_N 1.49 0.83
523_N 576_W 1.487 0.83
32_E 85_L 1.46 0.82
360_S 420_E 1.442 0.81
354_F 366_R 1.436 0.80
504_Y 653_Y 1.435 0.80
485_L 515_L 1.432 0.80
378_G 381_L 1.431 0.80
270_G 292_P 1.42 0.79
527_A 574_Y 1.42 0.79
355_E 415_V 1.413 0.79
736_S 773_A 1.408 0.78
306_D 310_K 1.406 0.78
274_S 338_R 1.404 0.78
319_Y 347_F 1.399 0.78
370_R 388_R 1.398 0.78
48_V 84_L 1.394 0.77
102_N 141_Y 1.392 0.77
230_Y 262_E 1.391 0.77
467_T 493_D 1.389 0.77
600_T 604_S 1.383 0.77
52_D 58_D 1.373 0.76
373_E 776_W 1.372 0.76
767_R 797_D 1.368 0.76
134_E 153_A 1.362 0.75
76_R 87_Q 1.354 0.74
185_N 230_Y 1.353 0.74
102_N 107_D 1.346 0.74
248_T 252_K 1.346 0.74
778_S 781_G 1.343 0.74
786_S 803_Q 1.343 0.74
189_T 192_E 1.326 0.72
151_V 165_L 1.326 0.72
346_R 376_W 1.325 0.72
29_I 50_T 1.318 0.72
395_F 418_V 1.315 0.71
185_N 193_L 1.315 0.71
282_A 286_Q 1.313 0.71
260_I 308_I 1.312 0.71
360_S 392_L 1.31 0.71
511_T 515_L 1.305 0.71
469_A 610_K 1.304 0.70
73_E 89_K 1.302 0.70
772_I 787_Y 1.301 0.70
444_V 458_I 1.3 0.70
179_Q 255_Y 1.296 0.70
403_Q 415_V 1.292 0.69
202_E 212_R 1.289 0.69
424_G 429_G 1.283 0.69
107_D 111_K 1.283 0.69
156_T 164_D 1.271 0.68
181_N 257_T 1.27 0.68
787_Y 801_Q 1.268 0.67
787_Y 800_E 1.266 0.67
133_I 167_L 1.266 0.67
570_F 603_G 1.265 0.67
384_Q 521_E 1.26 0.67
26_V 29_I 1.256 0.66
125_L 163_V 1.256 0.66
533_H 568_D 1.255 0.66
47_P 62_T 1.251 0.66
370_R 384_Q 1.248 0.66
226_L 229_Y 1.246 0.65
739_W 770_A 1.244 0.65
483_V 517_F 1.243 0.65
529_L 602_P 1.239 0.65
34_L 39_V 1.233 0.64
94_I 165_L 1.232 0.64
444_V 595_L 1.229 0.64
663_F 792_K 1.228 0.64
229_Y 233_R 1.228 0.64
296_Y 805_N 1.225 0.63
716_L 739_W 1.223 0.63
268_L 337_L 1.223 0.63
661_R 740_D 1.221 0.63
371_Q 382_V 1.221 0.63
299_T 303_K 1.22 0.63
456_V 471_L 1.219 0.63
272_E 338_R 1.219 0.63
150_S 170_Q 1.219 0.63
770_A 791_F 1.217 0.63
30_H 80_D 1.217 0.63
75_V 81_G 1.215 0.63
86_V 774_L 1.215 0.63
575_G 596_T 1.213 0.62
570_F 602_P 1.206 0.62
185_N 262_E 1.203 0.61
460_G 467_T 1.202 0.61
440_F 460_G 1.202 0.61
593_V 615_T 1.202 0.61
528_G 575_G 1.201 0.61
237_R 328_I 1.198 0.61
268_L 271_V 1.198 0.61
235_Y 317_Y 1.195 0.61
189_T 194_I 1.194 0.61
7_L 10_S 1.19 0.60
31_F 86_V 1.187 0.60
36_R 41_A 1.182 0.59
773_A 785_F 1.181 0.59
736_S 775_Q 1.18 0.59
366_R 373_E 1.177 0.59
312_L 343_A 1.177 0.59
362_D 366_R 1.176 0.59
4_K 7_L 1.171 0.58
368_E 388_R 1.169 0.58
783_L 806_I 1.166 0.58
400_T 416_Y 1.166 0.58
367_R 477_Y 1.165 0.58
487_G 513_V 1.164 0.58
357_N 366_R 1.163 0.57
63_I 77_V 1.162 0.57
19_Y 22_E 1.152 0.56
284_I 308_I 1.144 0.56
599_V 641_L 1.144 0.56
369_M 385_G 1.142 0.55
526_R 575_G 1.14 0.55
54_V 59_I 1.137 0.55
361_K 715_S 1.137 0.55
382_V 414_V 1.136 0.55
630_L 719_I 1.136 0.55
614_D 634_R 1.136 0.55
388_R 521_E 1.135 0.55
66_L 69_T 1.135 0.55
773_A 786_S 1.134 0.55
51_G 317_Y 1.134 0.55
637_Y 710_A 1.131 0.54
570_F 600_T 1.131 0.54
389_L 431_G 1.13 0.54
190_T 194_I 1.13 0.54
655_G 742_G 1.127 0.54
768_M 791_F 1.126 0.54
477_Y 482_G 1.125 0.54
570_F 604_S 1.121 0.53
632_R 715_S 1.119 0.53
595_L 611_V 1.118 0.53
188_F 352_I 1.114 0.53
751_S 754_Y 1.113 0.53
103_K 235_Y 1.111 0.52
807_G 810_W 1.111 0.52
34_L 90_E 1.11 0.52
426_F 444_V 1.109 0.52
99_F 111_K 1.108 0.52
180_I 201_D 1.107 0.52
145_G 374_G 1.105 0.52
4_K 10_S 1.103 0.52
423_T 446_Q 1.103 0.52
347_F 416_Y 1.102 0.51
8_I 13_F 1.099 0.51
220_A 223_L 1.099 0.51
133_I 423_T 1.097 0.51
65_A 205_W 1.097 0.51
192_E 329_N 1.092 0.50
59_I 77_V 1.09 0.50
77_V 537_S 1.086 0.50
394_F 453_G 1.084 0.50
7_L 12_L 1.084 0.50
429_G 579_N 1.083 0.50
396_E 429_G 1.083 0.50
368_E 477_Y 1.082 0.49
10_S 14_S 1.081 0.49
102_N 169_F 1.08 0.49
75_V 500_D 1.078 0.49
203_V 206_W 1.078 0.49
571_T 608_Y 1.078 0.49
293_G 628_V 1.078 0.49
177_I 199_L 1.077 0.49
741_M 768_M 1.077 0.49
126_D 294_E 1.074 0.49
6_L 10_S 1.073 0.49
54_V 62_T 1.073 0.49
291_E 294_E 1.072 0.48
124_S 618_Y 1.068 0.48
436_S 549_L 1.067 0.48
587_P 618_Y 1.067 0.48
442_A 658_S 1.066 0.48
271_V 290_I 1.066 0.48
156_T 166_K 1.066 0.48
5_K 15_S 1.065 0.48
260_I 770_A 1.064 0.48
325_M 340_N 1.064 0.48
105_V 171_E 1.063 0.48
138_E 142_Y 1.063 0.48
525_L 576_W 1.063 0.48
602_P 648_F 1.06 0.47
346_R 650_E 1.06 0.47
182_I 197_F 1.059 0.47
212_R 304_M 1.057 0.47
283_E 311_L 1.056 0.47
138_E 150_S 1.056 0.47
331_A 599_V 1.055 0.47
434_T 806_I 1.054 0.47
259_N 628_V 1.054 0.47
511_T 599_V 1.053 0.46
581_L 592_R 1.052 0.46
323_Q 341_V 1.051 0.46
275_G 312_L 1.05 0.46
471_L 489_L 1.05 0.46
39_V 42_A 1.049 0.46
11_L 15_S 1.049 0.46
273_V 285_E 1.049 0.46
42_A 46_M 1.041 0.45
452_T 475_N 1.037 0.45
141_Y 169_F 1.037 0.45
29_I 63_I 1.034 0.45
365_L 423_T 1.031 0.44
366_R 385_G 1.03 0.44
10_S 16_A 1.029 0.44
172_G 707_G 1.028 0.44
431_G 439_S 1.027 0.44
222_D 357_N 1.027 0.44
596_T 612_T 1.026 0.44
178_Q 253_G 1.026 0.44
654_A 713_V 1.026 0.44
214_Y 478_F 1.025 0.44
267_K 295_L 1.023 0.44
386_K 399_D 1.022 0.43
185_N 188_F 1.021 0.43
525_L 536_L 1.021 0.43
663_F 767_R 1.02 0.43
279_G 284_I 1.02 0.43
131_A 666_N 1.018 0.43
474_T 486_G 1.017 0.43
578_Y 593_V 1.016 0.43
523_N 578_Y 1.014 0.43
238_F 260_I 1.011 0.42
636_G 711_M 1.01 0.42
350_R 411_Q 1.009 0.42
280_H 283_E 1.008 0.42
397_T 419_K 1.008 0.42
27_K 83_T 1.007 0.42
4_K 11_L 1.003 0.42
617_T 631_G 1.002 0.41
45_S 69_T 1.001 0.41
359_T 446_Q 1 0.41
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
4k3bA10.9581000.246Contact Map0.623
4c00A10.67651000.523Contact Map0.604
4k3cA10.65061000.549Contact Map0.619
3efcA10.48771000.604Contact Map0.684
2qdzA10.63951000.659Contact Map0.394
2qdfA10.41361000.694Contact Map0.758
4bzaA10.31361000.808Contact Map0.605
2x8xX10.2841000.815Contact Map0.549
3mc9A20.3631000.822Contact Map0.613
3q6bA10.23091000.835Contact Map0.75
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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