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OPENSEQ.org
PARE - DNA topoisomerase 4 subunit B
UniProt: P20083 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10687
Length: 630 (627)
Sequences: 2480
Seq/Len: 3.96
PARE
Paralog alert: 0.70 [within 20: 0.01] - ratio of genomes with paralogs
Cluster includes: GYRB PARE
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
53_K 70_D 7.187 1.00
135_Q 152_V 4.692 1.00
169_P 179_F 4.229 1.00
39_V 116_I 4.218 1.00
124_K 168_W 4.007 1.00
127_E 140_A 3.846 1.00
203_K 210_E 3.529 1.00
60_H 66_E 3.428 1.00
580_D 583_T 3.417 1.00
142_E 147_V 3.308 1.00
125_R 168_W 3.285 1.00
68_I 164_S 3.165 1.00
91_L 165_V 3.014 1.00
127_E 138_N 3.006 1.00
60_H 205_E 2.99 1.00
199_E 212_R 2.969 1.00
128_V 165_V 2.93 1.00
131_R 160_N 2.926 1.00
125_R 140_A 2.915 1.00
406_A 411_R 2.856 1.00
148_Q 151_Q 2.788 1.00
483_G 518_H 2.783 1.00
129_N 164_S 2.761 1.00
480_L 518_H 2.731 1.00
538_A 547_V 2.721 1.00
76_V 137_Y 2.656 1.00
7_A 77_D 2.65 1.00
87_V 150_L 2.649 1.00
135_Q 155_T 2.639 1.00
54_R 70_D 2.628 1.00
87_V 128_V 2.604 1.00
101_S 104_N 2.598 1.00
124_K 171_E 2.598 1.00
59_L 65_L 2.57 1.00
138_N 151_Q 2.567 1.00
527_Y 541_E 2.559 1.00
54_R 199_E 2.549 1.00
129_N 138_N 2.537 1.00
414_L 468_I 2.515 1.00
44_V 198_V 2.509 1.00
523_L 587_V 2.504 1.00
36_G 184_L 2.503 1.00
60_H 166_H 2.501 1.00
61_A 205_E 2.498 1.00
82_E 89_L 2.445 1.00
192_A 215_Y 2.406 1.00
408_D 411_R 2.389 1.00
66_E 166_H 2.366 1.00
56_D 201_T 2.35 1.00
199_E 214_C 2.321 1.00
56_D 68_I 2.305 1.00
84_V 88_E 2.283 1.00
58_I 68_I 2.246 1.00
129_N 136_V 2.237 1.00
513_L 519_V 2.235 1.00
464_I 468_I 2.229 1.00
617_N 621_E 2.221 1.00
77_D 133_D 2.216 1.00
87_V 130_V 2.212 1.00
137_Y 152_V 2.163 1.00
14_T 81_E 2.159 1.00
56_D 203_K 2.128 1.00
131_R 136_V 2.121 1.00
296_E 306_K 2.096 1.00
468_I 485_I 2.045 1.00
293_E 297_Y 2.022 1.00
18_P 95_H 1.988 1.00
511_R 515_K 1.981 1.00
409_L 483_G 1.978 1.00
37_Q 184_L 1.962 1.00
405_T 432_R 1.958 1.00
181_V 211_Q 1.946 1.00
291_M 358_L 1.926 1.00
622_K 625_M 1.915 1.00
143_N 172_T 1.91 1.00
402_A 427_K 1.901 1.00
247_E 345_F 1.899 1.00
7_A 86_A 1.892 1.00
60_H 64_S 1.887 1.00
416_L 440_L 1.881 1.00
57_V 188_L 1.876 1.00
266_S 280_V 1.87 1.00
512_A 515_K 1.857 1.00
416_L 460_E 1.856 1.00
486_C 586_L 1.834 1.00
36_G 65_L 1.832 1.00
52_A 70_D 1.823 1.00
530_D 535_V 1.817 1.00
116_I 126_V 1.811 1.00
129_N 166_H 1.806 1.00
266_S 273_T 1.792 0.99
416_L 464_I 1.779 0.99
425_S 571_P 1.764 0.99
74_M 90_I 1.753 0.99
127_E 166_H 1.75 0.99
290_A 351_K 1.75 0.99
275_Q 335_E 1.74 0.99
140_A 148_Q 1.74 0.99
283_L 320_L 1.736 0.99
251_W 320_L 1.732 0.99
139_I 146_K 1.726 0.99
77_D 132_R 1.712 0.99
65_L 179_F 1.701 0.99
140_A 147_V 1.684 0.99
512_A 516_H 1.681 0.99
295_C 301_L 1.658 0.99
152_V 155_T 1.654 0.99
54_R 201_T 1.652 0.99
131_R 164_S 1.643 0.99
125_R 142_E 1.643 0.99
343_A 347_S 1.634 0.99
468_I 480_L 1.634 0.99
441_K 460_E 1.626 0.99
414_L 464_I 1.623 0.99
43_S 165_V 1.595 0.98
459_Q 463_D 1.592 0.98
598_R 601_A 1.587 0.98
84_V 93_R 1.586 0.98
8_D 80_P 1.57 0.98
193_V 225_E 1.554 0.98
506_F 519_V 1.551 0.98
227_V 254_L 1.548 0.98
40_I 188_L 1.543 0.98
138_N 153_V 1.53 0.98
477_L 516_H 1.52 0.98
410_N 483_G 1.519 0.98
181_V 213_W 1.519 0.98
58_I 205_E 1.507 0.98
130_V 150_L 1.498 0.97
521_V 589_L 1.491 0.97
52_A 55_V 1.484 0.97
181_V 202_F 1.478 0.97
268_V 324_M 1.476 0.97
136_V 154_G 1.472 0.97
97_G 100_F 1.47 0.97
220_N 224_A 1.47 0.97
428_Q 571_P 1.467 0.97
294_F 365_A 1.465 0.97
572_M 580_D 1.46 0.97
342_C 345_F 1.46 0.97
77_D 86_A 1.459 0.97
141_F 146_K 1.452 0.97
361_N 364_A 1.445 0.97
91_L 116_I 1.444 0.97
78_I 83_G 1.443 0.97
529_I 547_V 1.44 0.97
307_L 372_A 1.43 0.96
274_M 335_E 1.423 0.96
540_T 543_E 1.42 0.96
503_C 519_V 1.42 0.96
68_I 160_N 1.419 0.96
126_V 165_V 1.413 0.96
141_F 148_Q 1.413 0.96
58_I 203_K 1.409 0.96
228_N 601_A 1.408 0.96
40_I 67_V 1.405 0.96
11_E 21_R 1.393 0.96
91_L 126_V 1.392 0.96
324_M 342_C 1.379 0.95
66_E 164_S 1.366 0.95
44_V 191_K 1.36 0.95
453_D 457_A 1.355 0.95
136_V 153_V 1.354 0.95
545_E 549_E 1.354 0.95
411_R 433_E 1.351 0.95
6_N 9_A 1.326 0.94
60_H 63_Q 1.325 0.94
136_V 156_C 1.324 0.94
268_V 273_T 1.322 0.94
357_W 361_N 1.319 0.94
189_K 225_E 1.315 0.94
412_T 483_G 1.314 0.94
180_S 183_R 1.309 0.93
283_L 318_Y 1.309 0.93
221_D 224_A 1.307 0.93
354_F 358_L 1.306 0.93
124_K 143_N 1.299 0.93
431_D 434_Y 1.295 0.93
217_D 220_N 1.294 0.93
156_C 160_N 1.288 0.93
141_F 150_L 1.286 0.93
59_L 63_Q 1.283 0.92
536_Y 550_Q 1.272 0.92
309_A 313_W 1.272 0.92
143_N 173_F 1.269 0.92
485_I 506_F 1.267 0.92
441_K 459_Q 1.26 0.92
460_E 463_D 1.254 0.91
322_V 342_C 1.252 0.91
36_G 40_I 1.25 0.91
63_Q 179_F 1.24 0.91
11_E 14_T 1.237 0.91
371_M 388_R 1.237 0.91
231_P 257_P 1.236 0.90
330_A 335_E 1.231 0.90
201_T 212_R 1.23 0.90
185_T 211_Q 1.225 0.90
264_T 284_R 1.224 0.90
531_L 557_K 1.223 0.90
441_K 444_I 1.219 0.90
76_V 132_R 1.214 0.89
89_L 93_R 1.214 0.89
11_E 101_S 1.212 0.89
406_A 412_T 1.212 0.89
10_I 86_A 1.207 0.89
64_S 168_W 1.192 0.88
409_L 412_T 1.19 0.88
291_M 312_I 1.185 0.88
480_L 516_H 1.183 0.88
576_E 580_D 1.176 0.87
275_Q 331_G 1.175 0.87
131_R 161_T 1.171 0.87
611_R 614_D 1.167 0.87
613_E 617_N 1.165 0.87
14_T 82_E 1.153 0.86
285_Q 347_S 1.151 0.86
444_I 460_E 1.151 0.86
124_K 172_T 1.148 0.86
201_T 210_E 1.146 0.85
225_E 601_A 1.146 0.85
16_L 94_L 1.144 0.85
146_K 149_D 1.137 0.85
247_E 342_C 1.137 0.85
601_A 605_M 1.131 0.84
91_L 128_V 1.13 0.84
281_N 285_Q 1.126 0.84
344_A 348_G 1.125 0.84
288_L 309_A 1.125 0.84
273_T 338_S 1.124 0.84
264_T 318_Y 1.121 0.84
156_C 159_R 1.12 0.84
64_S 169_P 1.116 0.83
19_V 94_L 1.116 0.83
18_P 21_R 1.115 0.83
331_G 338_S 1.114 0.83
59_L 202_F 1.11 0.83
403_D 481_R 1.103 0.82
470_I 480_L 1.103 0.82
353_A 356_L 1.102 0.82
314_D 375_S 1.1 0.82
561_Q 573_Q 1.099 0.82
367_L 370_E 1.099 0.82
9_A 104_N 1.098 0.82
58_I 66_E 1.094 0.82
358_L 365_A 1.089 0.81
546_G 550_Q 1.088 0.81
170_D 173_F 1.083 0.81
227_V 317_A 1.082 0.81
499_A 521_V 1.079 0.80
11_E 81_E 1.076 0.80
253_L 316_C 1.069 0.80
434_Y 581_P 1.069 0.80
444_I 461_V 1.066 0.79
273_T 331_G 1.063 0.79
293_E 296_E 1.063 0.79
168_W 171_E 1.063 0.79
96_A 100_F 1.061 0.79
330_A 338_S 1.058 0.79
536_Y 547_V 1.057 0.78
405_T 433_E 1.055 0.78
78_I 84_V 1.053 0.78
529_I 544_K 1.051 0.78
21_R 326_D 1.05 0.78
74_M 165_V 1.05 0.78
127_E 142_E 1.046 0.77
47_A 198_V 1.045 0.77
109_G 271_I 1.04 0.77
54_R 203_K 1.033 0.76
181_V 185_T 1.032 0.76
296_E 303_R 1.03 0.76
217_D 224_A 1.02 0.75
290_A 354_F 1.017 0.75
189_K 215_Y 1.017 0.75
139_I 148_Q 1.016 0.75
31_R 340_R 1.016 0.75
303_R 306_K 1.015 0.74
132_R 161_T 1.015 0.74
470_I 477_L 1.008 0.74
331_G 335_E 1.007 0.74
171_E 177_P 1.006 0.73
476_D 479_Q 1.004 0.73
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
4i3hA20.98411000.077Contact Map0.644
4gfhA20.95871000.125Contact Map0.569
3zkbA160.60631000.53Contact Map0.85
3lnuA10.61591000.541Contact Map0.716
1s16A20.6191000.552Contact Map0.761
1ei1A20.60791000.563Contact Map0.813
1zxmA20.58251000.564Contact Map0.61
2xkjE10.41111000.566Contact Map0.714
3nuhB10.39371000.567Contact Map0.733
4hy1A20.61751000.567Contact Map0.707
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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