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OPENSEQ.org
PARC - DNA topoisomerase 4 subunit A
UniProt: P0AFI2 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10686
Length: 752 (713)
Sequences: 2206
Seq/Len: 3.09
PARC
Paralog alert: 0.64 [within 20: 0.01] - ratio of genomes with paralogs
Cluster includes: GYRA PARC
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
71_L 82_C 6.319 1.00
370_L 448_Q 5.421 1.00
197_D 462_K 4.733 1.00
186_R 473_G 4.551 1.00
194_A 201_T 4.518 1.00
647_T 672_I 4.424 1.00
190_Q 469_A 4.084 1.00
191_A 210_V 3.964 1.00
449_G 453_S 3.679 1.00
195_L 347_L 3.504 1.00
139_G 367_E 3.488 1.00
109_P 295_T 3.435 1.00
144_V 155_K 3.346 1.00
60_F 101_D 3.302 1.00
194_A 209_I 3.289 1.00
195_L 201_T 3.254 1.00
65_R 73_K 3.217 1.00
446_Q 456_K 3.129 1.00
367_E 371_K 3.07 1.00
245_W 316_F 3.067 1.00
459_N 463_K 2.925 1.00
449_G 456_K 2.889 1.00
446_Q 449_G 2.826 1.00
161_L 166_L 2.815 1.00
186_R 190_Q 2.727 1.00
599_D 629_H 2.699 1.00
138_Q 365_R 2.683 1.00
388_E 406_R 2.664 1.00
66_T 123_S 2.606 1.00
648_Q 678_E 2.603 1.00
198_Q 205_Q 2.592 1.00
359_R 363_N 2.58 1.00
415_E 419_E 2.554 1.00
202_T 205_Q 2.551 1.00
203_L 342_N 2.551 1.00
56_A 130_E 2.54 1.00
648_Q 685_G 2.531 1.00
196_I 458_N 2.524 1.00
97_Y 474_D 2.514 1.00
675_P 724_R 2.491 1.00
245_W 252_V 2.489 1.00
244_V 479_P 2.488 1.00
391_E 395_N 2.468 1.00
625_P 667_K 2.464 1.00
368_K 371_K 2.456 1.00
186_R 475_D 2.441 1.00
467_A 471_A 2.409 1.00
597_A 645_A 2.407 1.00
506_Q 530_S 2.401 1.00
206_L 343_L 2.397 1.00
186_R 469_A 2.392 1.00
166_L 188_V 2.374 1.00
63_S 86_M 2.357 1.00
392_I 402_A 2.357 1.00
670_K 673_N 2.355 1.00
142_D 360_R 2.354 1.00
204_D 233_E 2.335 1.00
145_P 149_G 2.33 1.00
381_V 409_L 2.329 1.00
653_L 723_R 2.314 1.00
193_I 466_Q 2.303 1.00
189_A 465_L 2.3 1.00
188_V 210_V 2.274 1.00
206_L 344_L 2.267 1.00
283_D 302_R 2.255 1.00
45_I 85_A 2.243 1.00
145_P 152_Q 2.223 1.00
80_S 84_E 2.198 1.00
443_E 447_L 2.15 1.00
365_R 447_L 2.14 1.00
212_G 228_I 2.138 1.00
376_L 433_I 2.126 1.00
642_M 654_M 2.121 1.00
645_A 671_I 2.107 1.00
372_R 436_E 2.095 1.00
355_R 454_E 2.086 1.00
549_T 579_G 2.085 1.00
515_G 519_D 2.078 1.00
400_K 415_E 2.073 1.00
358_V 461_L 2.065 1.00
131_L 472_Y 2.054 1.00
194_A 198_Q 2.045 1.00
81_A 85_A 2.033 1.00
500_V 557_P 2.029 1.00
201_T 205_Q 2.011 1.00
672_I 686_L 2.001 1.00
265_R 268_E 1.988 1.00
344_L 348_S 1.984 1.00
448_Q 452_A 1.978 1.00
245_W 312_M 1.975 1.00
34_I 349_E 1.973 1.00
457_M 460_L 1.968 1.00
446_Q 450_I 1.968 1.00
203_L 344_L 1.965 1.00
246_K 255_S 1.963 1.00
127_K 471_A 1.963 1.00
201_T 209_I 1.962 1.00
243_A 254_I 1.96 1.00
86_M 123_S 1.945 1.00
516_H 519_D 1.927 1.00
195_L 351_L 1.917 0.99
229_R 233_E 1.911 0.99
61_K 65_R 1.897 0.99
438_S 442_K 1.884 0.99
548_S 629_H 1.879 0.99
439_E 443_E 1.873 0.99
87_V 114_S 1.871 0.99
456_K 459_N 1.868 0.99
429_E 432_K 1.858 0.99
599_D 628_A 1.857 0.99
602_Y 670_K 1.84 0.99
240_R 322_E 1.836 0.99
334_L 341_K 1.826 0.99
101_D 124_R 1.826 0.99
250_G 308_M 1.815 0.99
362_L 447_L 1.809 0.99
381_V 385_N 1.804 0.99
192_A 351_L 1.796 0.99
161_L 468_D 1.789 0.99
537_G 541_Q 1.775 0.99
653_L 719_G 1.766 0.99
603_G 671_I 1.766 0.99
254_I 299_I 1.765 0.99
257_L 297_L 1.764 0.99
203_L 233_E 1.748 0.99
371_K 412_T 1.737 0.99
65_R 69_D 1.729 0.99
431_M 435_G 1.717 0.99
453_S 456_K 1.711 0.99
180_I 329_L 1.707 0.99
435_G 439_E 1.693 0.98
204_D 229_R 1.677 0.98
538_K 541_Q 1.662 0.98
595_L 603_G 1.656 0.98
65_R 72_G 1.655 0.98
34_I 346_I 1.645 0.98
193_I 462_K 1.643 0.98
595_L 643_L 1.635 0.98
180_I 346_I 1.621 0.98
266_V 297_L 1.614 0.98
339_A 345_E 1.608 0.98
645_A 686_L 1.59 0.97
450_I 460_L 1.566 0.97
198_Q 201_T 1.563 0.97
131_L 134_S 1.543 0.97
497_S 538_K 1.54 0.97
395_N 402_A 1.52 0.96
373_L 437_Q 1.519 0.96
597_A 686_L 1.518 0.96
547_D 582_V 1.517 0.96
595_L 660_L 1.506 0.96
348_S 352_V 1.501 0.96
73_K 151_L 1.501 0.96
434_R 438_S 1.496 0.96
597_A 689_L 1.485 0.96
267_L 297_L 1.482 0.96
355_R 458_N 1.481 0.96
349_E 352_V 1.474 0.95
239_V 327_I 1.457 0.95
65_R 151_L 1.451 0.95
334_L 349_E 1.442 0.95
401_P 405_S 1.442 0.95
48_A 69_D 1.439 0.95
515_G 518_I 1.413 0.94
400_K 411_E 1.405 0.94
599_D 685_G 1.404 0.94
449_G 452_A 1.39 0.93
243_A 316_F 1.384 0.93
195_L 348_S 1.377 0.93
363_N 367_E 1.373 0.93
607_T 662_Q 1.373 0.93
48_A 71_L 1.366 0.92
205_Q 208_D 1.363 0.92
225_R 482_E 1.361 0.92
466_Q 470_Q 1.358 0.92
450_I 456_K 1.357 0.92
492_H 556_D 1.354 0.92
389_V 403_L 1.348 0.92
203_L 206_L 1.347 0.92
359_R 451_L 1.347 0.92
396_E 402_A 1.345 0.91
350_W 354_R 1.339 0.91
462_K 466_Q 1.337 0.91
52_L 69_D 1.333 0.91
320_D 323_K 1.332 0.91
638_D 657_V 1.327 0.91
63_S 123_S 1.322 0.91
342_N 345_E 1.318 0.90
247_K 252_V 1.312 0.90
133_L 157_L 1.307 0.90
65_R 118_M 1.302 0.90
445_D 449_G 1.3 0.90
18_Y 28_D 1.3 0.90
230_K 233_E 1.3 0.90
506_Q 532_K 1.3 0.90
636_I 657_V 1.3 0.90
380_L 437_Q 1.294 0.89
270_I 299_I 1.291 0.89
702_V 705_R 1.29 0.89
170_T 179_D 1.286 0.89
47_Y 50_S 1.286 0.89
329_L 346_I 1.281 0.89
443_E 446_Q 1.277 0.88
189_A 192_A 1.272 0.88
142_D 155_K 1.271 0.88
269_Q 272_A 1.269 0.88
498_E 539_S 1.267 0.88
659_D 720_E 1.267 0.88
223_T 294_P 1.265 0.88
548_S 580_A 1.265 0.88
219_A 243_A 1.253 0.87
554_A 614_R 1.251 0.87
238_S 324_S 1.251 0.87
293_N 702_V 1.25 0.87
190_Q 473_G 1.25 0.87
418_L 423_R 1.25 0.87
335_D 352_V 1.248 0.87
240_R 324_S 1.243 0.87
358_V 457_M 1.239 0.86
96_R 474_D 1.238 0.86
290_D 295_T 1.237 0.86
385_N 409_L 1.235 0.86
442_K 446_Q 1.234 0.86
132_L 159_A 1.232 0.86
54_L 66_T 1.223 0.85
179_D 326_R 1.223 0.85
69_D 147_F 1.222 0.85
355_R 457_M 1.209 0.84
377_E 441_E 1.205 0.84
294_P 702_V 1.203 0.84
195_L 344_L 1.199 0.84
288_E 298_V 1.198 0.84
243_A 321_L 1.193 0.83
203_L 207_L 1.19 0.83
48_A 82_C 1.19 0.83
497_S 539_S 1.187 0.83
719_G 723_R 1.186 0.83
70_V 82_C 1.186 0.83
267_L 285_L 1.185 0.83
16_N 20_N 1.183 0.83
445_D 448_Q 1.176 0.82
439_E 442_K 1.174 0.82
61_K 73_K 1.173 0.82
361_R 464_E 1.17 0.82
345_E 348_S 1.165 0.81
605_V 662_Q 1.16 0.81
703_G 706_K 1.158 0.81
647_T 678_E 1.157 0.81
673_N 724_R 1.156 0.81
600_A 627_N 1.152 0.80
549_T 577_P 1.15 0.80
286_R 300_V 1.15 0.80
596_M 633_P 1.15 0.80
380_L 434_R 1.149 0.80
251_A 300_V 1.149 0.80
593_K 662_Q 1.148 0.80
442_K 445_D 1.147 0.80
192_A 347_L 1.145 0.80
437_Q 441_E 1.141 0.79
59_K 124_R 1.139 0.79
89_M 95_Y 1.137 0.79
388_E 391_E 1.136 0.79
507_M 526_K 1.128 0.78
288_E 296_R 1.125 0.78
642_M 656_P 1.123 0.78
71_L 147_F 1.113 0.77
590_D 609_N 1.112 0.77
223_T 293_N 1.11 0.77
602_Y 667_K 1.11 0.77
701_H 705_R 1.106 0.76
247_K 312_M 1.105 0.76
61_K 150_T 1.101 0.76
594_L 633_P 1.098 0.76
502_I 557_P 1.097 0.76
649_A 678_E 1.097 0.76
375_I 416_A 1.095 0.75
454_E 458_N 1.095 0.75
606_C 611_L 1.094 0.75
270_I 285_L 1.093 0.75
446_Q 453_S 1.093 0.75
551_R 577_P 1.084 0.74
398_E 401_P 1.081 0.74
386_I 394_R 1.077 0.74
358_V 464_E 1.075 0.73
404_M 414_A 1.074 0.73
228_I 239_V 1.071 0.73
55_N 58_A 1.069 0.73
446_Q 460_L 1.069 0.73
11_H 15_E 1.064 0.72
717_V 728_M 1.063 0.72
546_V 633_P 1.062 0.72
363_N 370_L 1.059 0.72
719_G 726_T 1.058 0.72
241_M 323_K 1.057 0.72
224_S 293_N 1.051 0.71
248_E 253_V 1.05 0.71
191_A 206_L 1.047 0.71
56_A 127_K 1.043 0.70
362_L 450_I 1.043 0.70
392_I 414_A 1.042 0.70
181_P 329_L 1.039 0.70
282_V 299_I 1.039 0.70
161_L 189_A 1.038 0.70
100_V 123_S 1.037 0.70
455_R 463_K 1.033 0.69
359_R 457_M 1.031 0.69
248_E 296_R 1.028 0.69
226_A 230_K 1.025 0.68
225_R 228_I 1.022 0.68
548_S 581_T 1.021 0.68
52_L 65_R 1.021 0.68
190_Q 466_Q 1.017 0.67
241_M 478_S 1.016 0.67
67_V 118_M 1.008 0.66
198_Q 202_T 1.008 0.66
28_D 169_T 1.008 0.66
139_G 364_Y 1.006 0.66
379_L 433_I 1.005 0.66
132_L 157_L 1.005 0.66
597_A 671_I 1.004 0.66
42_Q 94_S 1.003 0.66
623_T 666_G 1.003 0.66
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
1zvuA10.95211000.183Contact Map0.678
2xkjE10.66361000.351Contact Map0.693
4i3hA20.65031000.352Contact Map0.707
2inrA10.64231000.357Contact Map0.684
2novA40.64891000.357Contact Map0.741
2xcsB20.63561000.363Contact Map0.801
3ilwA20.60771000.373Contact Map0.756
3lpxA20.60771000.384Contact Map0.821
4gfhA20.59711000.512Contact Map0.519
3l4jA10.58911000.514Contact Map0.512
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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