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OPENSEQ.org
SECD - Protein translocase subunit SecD
UniProt: P0AG90 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10938
Length: 615 (613)
Sequences: 825
Seq/Len: 1.35
SECD
Paralog alert: 0.09 [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
447_M 451_E 4.427 1.00
361_I 400_S 4.243 1.00
493_I 584_I 3.769 1.00
340_Q 409_T 2.768 1.00
325_H 346_D 2.645 1.00
343_I 406_F 2.605 1.00
399_Q 409_T 2.601 1.00
340_Q 407_R 2.514 1.00
332_S 342_N 2.461 1.00
490_I 584_I 2.426 1.00
80_S 83_T 2.424 1.00
590_M 594_I 2.329 0.99
136_E 254_D 2.322 0.99
478_I 601_V 2.236 0.99
561_L 583_G 2.14 0.99
20_G 489_L 2.111 0.98
268_R 419_Q 2.106 0.98
525_N 582_T 2.093 0.98
338_Q 399_Q 2.044 0.98
516_V 560_T 2.037 0.98
364_P 395_I 2.035 0.98
286_T 364_P 2.014 0.98
182_D 185_A 1.961 0.97
283_L 356_F 1.947 0.97
344_S 405_S 1.924 0.97
364_P 397_N 1.9 0.96
321_L 352_I 1.859 0.96
329_S 421_S 1.855 0.96
288_V 314_V 1.84 0.95
316_Y 363_K 1.807 0.95
285_N 316_Y 1.802 0.95
282_R 303_E 1.799 0.95
362_G 399_Q 1.796 0.95
270_K 438_E 1.78 0.94
539_Q 602_N 1.73 0.93
393_I 423_L 1.714 0.93
520_A 589_S 1.712 0.92
315_L 368_L 1.693 0.92
400_S 409_T 1.668 0.91
224_E 250_R 1.665 0.91
557_N 590_M 1.643 0.90
457_C 460_G 1.633 0.90
361_I 401_R 1.625 0.90
354_S 401_R 1.617 0.89
514_L 525_N 1.614 0.89
469_I 480_T 1.614 0.89
474_K 478_I 1.588 0.88
522_V 564_V 1.569 0.87
56_T 91_L 1.555 0.87
564_V 582_T 1.548 0.86
263_I 269_A 1.546 0.86
360_N 363_K 1.542 0.86
137_V 431_A 1.538 0.86
542_I 605_Y 1.536 0.86
482_A 597_T 1.528 0.85
353_M 402_L 1.511 0.85
490_I 588_T 1.507 0.84
260_L 269_A 1.506 0.84
360_N 562_I 1.501 0.84
554_F 558_I 1.496 0.84
522_V 542_I 1.495 0.84
56_T 94_V 1.484 0.83
7_L 11_V 1.482 0.83
513_T 588_T 1.482 0.83
525_N 564_V 1.48 0.83
267_A 271_E 1.464 0.82
281_F 408_I 1.449 0.81
53_V 76_A 1.427 0.80
75_L 106_A 1.424 0.79
142_A 444_T 1.421 0.79
402_L 406_F 1.417 0.79
306_Q 312_P 1.415 0.79
528_I 542_I 1.414 0.79
483_L 516_V 1.404 0.78
478_I 600_I 1.4 0.78
353_M 406_F 1.395 0.77
320_I 356_F 1.393 0.77
235_R 239_N 1.392 0.77
3_N 602_N 1.377 0.76
396_A 404_N 1.375 0.76
355_N 359_D 1.372 0.76
478_I 604_L 1.372 0.76
331_S 417_A 1.369 0.76
302_S 314_V 1.369 0.76
243_V 260_L 1.362 0.75
185_A 188_E 1.361 0.75
399_Q 407_R 1.354 0.74
461_L 487_L 1.345 0.74
520_A 557_N 1.341 0.73
544_E 548_G 1.335 0.73
55_K 59_E 1.333 0.73
60_E 90_A 1.329 0.73
347_S 558_I 1.329 0.73
345_L 406_F 1.324 0.72
358_K 401_R 1.32 0.72
353_M 404_N 1.31 0.71
458_L 462_L 1.305 0.71
566_I 570_V 1.3 0.70
516_V 525_N 1.3 0.70
5_Y 9_K 1.295 0.70
448_Q 452_Q 1.293 0.70
32_D 65_K 1.291 0.69
516_V 582_T 1.287 0.69
293_A 296_G 1.281 0.68
518_V 594_I 1.279 0.68
394_N 420_L 1.274 0.68
184_K 188_E 1.274 0.68
455_E 459_A 1.263 0.67
88_R 92_M 1.256 0.66
372_Y 388_K 1.248 0.66
589_S 594_I 1.245 0.65
593_A 597_T 1.245 0.65
350_G 404_N 1.24 0.65
394_N 403_G 1.24 0.65
564_V 583_G 1.237 0.65
303_E 317_K 1.236 0.64
161_K 188_E 1.234 0.64
281_F 357_T 1.233 0.64
146_L 435_I 1.233 0.64
146_L 149_Q 1.232 0.64
469_I 477_L 1.229 0.64
487_L 514_L 1.227 0.64
58_Q 63_T 1.225 0.63
285_N 302_S 1.219 0.63
494_M 515_A 1.217 0.63
542_I 602_N 1.204 0.61
78_F 81_T 1.204 0.61
474_K 477_L 1.203 0.61
402_L 408_I 1.201 0.61
27_N 495_S 1.2 0.61
113_L 137_V 1.197 0.61
409_T 412_N 1.197 0.61
90_A 94_V 1.196 0.61
490_I 513_T 1.191 0.60
134_L 251_Q 1.19 0.60
592_T 597_T 1.189 0.60
364_P 396_A 1.188 0.60
47_E 51_I 1.186 0.60
51_I 54_Q 1.183 0.59
35_V 91_L 1.181 0.59
563_K 566_I 1.179 0.59
154_L 193_L 1.178 0.59
190_I 194_S 1.177 0.59
518_V 592_T 1.176 0.59
396_A 402_L 1.174 0.59
189_A 210_L 1.165 0.58
395_I 402_L 1.162 0.57
218_R 221_E 1.162 0.57
131_V 266_T 1.161 0.57
487_L 491_V 1.154 0.57
330_T 409_T 1.152 0.56
176_L 179_T 1.148 0.56
348_A 352_I 1.145 0.56
3_N 10_Y 1.144 0.56
132_H 437_E 1.143 0.56
406_F 420_L 1.141 0.55
247_V 259_E 1.14 0.55
557_N 588_T 1.14 0.55
233_I 432_P 1.138 0.55
334_D 338_Q 1.136 0.55
284_V 395_I 1.134 0.55
58_Q 61_K 1.133 0.55
457_C 513_T 1.132 0.54
481_S 575_I 1.128 0.54
504_M 529_K 1.128 0.54
293_A 307_T 1.125 0.54
332_S 340_Q 1.124 0.54
523_L 533_S 1.121 0.53
13_L 596_G 1.121 0.53
58_Q 64_A 1.121 0.53
594_I 597_T 1.12 0.53
308_R 394_N 1.119 0.53
436_V 494_M 1.117 0.53
490_I 556_A 1.116 0.53
335_E 400_S 1.116 0.53
22_L 492_G 1.114 0.53
229_Q 425_R 1.111 0.52
138_D 265_D 1.11 0.52
395_I 404_N 1.108 0.52
244_A 260_L 1.108 0.52
342_N 407_R 1.108 0.52
451_E 455_E 1.107 0.52
350_G 353_M 1.105 0.52
343_I 402_L 1.098 0.51
5_Y 10_Y 1.097 0.51
4_R 7_L 1.095 0.51
79_D 94_V 1.091 0.50
357_T 402_L 1.091 0.50
260_L 590_M 1.09 0.50
361_I 409_T 1.09 0.50
78_F 370_V 1.089 0.50
557_N 586_V 1.089 0.50
48_Q 51_I 1.089 0.50
490_I 493_I 1.088 0.50
54_Q 58_Q 1.086 0.50
459_A 463_V 1.086 0.50
557_N 589_S 1.086 0.50
260_L 471_F 1.08 0.49
497_L 525_N 1.08 0.49
232_N 235_R 1.079 0.49
233_I 273_L 1.078 0.49
546_Y 601_V 1.077 0.49
313_V 364_P 1.077 0.49
525_N 550_F 1.076 0.49
258_V 399_Q 1.076 0.49
180_F 189_A 1.074 0.49
448_Q 561_L 1.072 0.48
186_R 190_I 1.071 0.48
248_V 574_A 1.071 0.48
63_T 79_D 1.071 0.48
441_I 551_S 1.07 0.48
260_L 263_I 1.069 0.48
59_E 64_A 1.068 0.48
572_T 592_T 1.067 0.48
51_I 79_D 1.066 0.48
365_M 398_I 1.062 0.47
217_A 220_S 1.061 0.47
402_L 420_L 1.057 0.47
337_N 407_R 1.056 0.47
44_A 47_E 1.055 0.47
315_L 528_I 1.054 0.47
517_A 589_S 1.052 0.46
462_L 466_L 1.051 0.46
235_R 509_G 1.051 0.46
243_V 471_F 1.05 0.46
61_K 64_A 1.05 0.46
443_P 450_I 1.049 0.46
354_S 358_K 1.049 0.46
5_Y 13_L 1.048 0.46
141_T 432_P 1.048 0.46
543_D 547_R 1.047 0.46
499_G 592_T 1.046 0.46
513_T 558_I 1.046 0.46
59_E 63_T 1.045 0.46
505_P 513_T 1.045 0.46
3_N 7_L 1.044 0.46
583_G 587_A 1.043 0.46
271_E 419_Q 1.043 0.46
289_D 293_A 1.042 0.45
229_Q 567_L 1.041 0.45
536_R 540_Q 1.04 0.45
228_Q 250_R 1.038 0.45
236_N 269_A 1.037 0.45
143_L 600_I 1.034 0.45
334_D 340_Q 1.034 0.45
131_V 263_I 1.033 0.45
193_L 392_V 1.032 0.44
477_L 480_T 1.032 0.44
32_D 106_A 1.032 0.44
82_D 90_A 1.032 0.44
509_G 582_T 1.029 0.44
356_F 456_A 1.028 0.44
444_T 516_V 1.028 0.44
230_N 430_I 1.027 0.44
510_I 530_E 1.027 0.44
321_L 325_H 1.026 0.44
374_D 386_L 1.025 0.44
71_E 86_R 1.023 0.44
514_L 562_I 1.023 0.44
290_Q 293_A 1.023 0.44
157_D 160_E 1.023 0.44
3_N 539_Q 1.022 0.43
132_H 580_I 1.021 0.43
249_Q 542_I 1.018 0.43
481_S 600_I 1.018 0.43
497_L 558_I 1.018 0.43
314_V 492_G 1.017 0.43
465_I 499_G 1.016 0.43
321_L 478_I 1.016 0.43
3_N 9_K 1.016 0.43
453_G 531_E 1.014 0.43
321_L 402_L 1.013 0.43
308_R 391_E 1.012 0.42
59_E 97_D 1.009 0.42
145_K 546_Y 1.008 0.42
63_T 94_V 1.007 0.42
301_D 504_M 1.007 0.42
316_Y 327_T 1.006 0.42
142_A 223_R 1.004 0.42
231_I 584_I 1.004 0.42
342_N 362_G 1.003 0.42
457_C 507_I 1.003 0.42
345_L 361_I 1.002 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
3aqpA20.68781000.591Contact Map0.388
3aqoA40.35281000.734Contact Map0.597
4k0jA60.746399.90.907Contact Map0.365
3w9iA60.754599.80.913Contact Map0.483
4dx5A30.757799.80.914Contact Map0.499
3ne5A10.741599.80.916Contact Map0.333
2gqcA10.113817.50.988Contact Map0.253
2k1sA10.201612.60.989Contact Map0.227
3cbwA20.097611.20.989Contact Map0
2lepA10.112211.10.989Contact Map0.413
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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