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OPENSEQ.org
LIGB - DNA ligase B
UniProt: P25772 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG11334
Length: 560 (532)
Sequences: 1990
Seq/Len: 3.74
LIGB
Paralog alert: 0.21 [within 20: 0.00] - ratio of genomes with paralogs
Cluster includes: DNLJ LIGB
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
33_E 67_R 5.987 1.00
315_K 334_A 4.621 1.00
44_W 56_V 4.157 1.00
452_L 480_A 3.931 1.00
142_A 158_V 3.43 1.00
43_Q 47_D 3.403 1.00
353_R 356_E 3.311 1.00
47_D 55_E 3.266 1.00
516_T 519_F 3.245 1.00
252_R 266_E 3.107 1.00
43_Q 55_E 2.994 1.00
46_D 51_E 2.975 1.00
317_I 390_P 2.858 1.00
103_M 301_V 2.693 1.00
313_E 364_Q 2.656 1.00
426_L 452_L 2.646 1.00
113_M 119_L 2.617 1.00
313_E 334_A 2.615 1.00
44_W 47_D 2.613 1.00
138_K 167_T 2.573 1.00
471_A 475_H 2.565 1.00
316_A 361_P 2.504 1.00
34_I 71_W 2.481 1.00
453_L 549_W 2.45 1.00
455_T 458_Q 2.433 1.00
118_D 284_A 2.384 1.00
510_S 551_A 2.381 1.00
384_G 387_R 2.365 1.00
309_A 368_S 2.363 1.00
139_L 158_V 2.36 1.00
256_N 259_E 2.325 1.00
231_L 284_A 2.312 1.00
46_D 50_K 2.305 1.00
70_Q 74_C 2.299 1.00
41_I 45_D 2.275 1.00
478_N 481_R 2.249 1.00
341_K 369_L 2.242 1.00
185_R 275_V 2.236 1.00
318_Q 332_S 2.215 1.00
351_V 355_Q 2.14 1.00
326_K 399_S 2.099 1.00
33_E 36_R 2.087 1.00
513_L 548_S 2.075 1.00
135_R 140_N 2.069 1.00
332_S 345_R 2.04 1.00
341_K 373_G 2.026 1.00
513_L 544_K 2.023 1.00
233_S 253_A 2.022 1.00
417_L 436_W 2.012 1.00
186_E 273_P 1.998 1.00
30_A 75_F 1.996 1.00
40_Q 44_W 1.992 1.00
44_W 64_L 1.987 1.00
136_D 173_A 1.976 1.00
253_A 284_A 1.952 1.00
447_H 549_W 1.949 1.00
254_V 259_E 1.935 1.00
89_G 153_D 1.924 1.00
238_E 242_A 1.921 1.00
110_S 258_D 1.917 1.00
517_E 532_R 1.911 1.00
130_V 154_W 1.911 1.00
319_F 390_P 1.886 1.00
319_F 327_I 1.875 1.00
548_S 552_A 1.855 1.00
369_L 373_G 1.852 1.00
320_A 330_V 1.851 1.00
456_P 474_W 1.845 1.00
184_Q 187_G 1.834 1.00
34_I 38_Q 1.822 0.99
415_S 418_V 1.782 0.99
38_Q 78_E 1.77 0.99
196_I 337_M 1.769 0.99
100_V 300_L 1.764 0.99
247_T 274_F 1.755 0.99
258_D 262_R 1.751 0.99
230_Q 234_D 1.747 0.99
456_P 471_A 1.742 0.99
333_L 365_I 1.713 0.99
426_L 480_A 1.702 0.99
130_V 158_V 1.691 0.99
219_G 245_T 1.678 0.99
368_S 376_R 1.667 0.99
496_L 533_Q 1.641 0.99
42_K 45_D 1.634 0.99
36_R 40_Q 1.626 0.99
57_E 60_V 1.624 0.99
66_A 69_T 1.611 0.98
414_I 437_R 1.6 0.98
110_S 257_A 1.595 0.98
366_L 379_D 1.594 0.98
125_V 182_F 1.585 0.98
105_D 108_A 1.584 0.98
101_R 296_Q 1.583 0.98
69_T 83_M 1.582 0.98
367_V 377_I 1.581 0.98
47_D 51_E 1.576 0.98
106_K 265_N 1.574 0.98
132_L 164_V 1.574 0.98
453_L 553_Q 1.573 0.98
187_G 217_S 1.569 0.98
260_V 281_V 1.568 0.98
44_W 55_E 1.563 0.98
158_V 181_I 1.555 0.98
135_R 174_N 1.553 0.98
255_K 259_E 1.538 0.98
106_K 261_A 1.527 0.98
503_A 523_L 1.525 0.98
517_E 535_I 1.523 0.98
535_I 539_E 1.522 0.97
91_V 141_K 1.522 0.97
47_D 56_V 1.522 0.97
65_S 69_T 1.52 0.97
90_A 427_G 1.511 0.97
467_K 471_A 1.492 0.97
84_M 188_H 1.492 0.97
233_S 284_A 1.489 0.97
163_A 219_G 1.483 0.97
419_W 490_M 1.455 0.96
158_V 161_I 1.451 0.96
133_V 174_N 1.437 0.96
159_S 166_Q 1.434 0.96
395_N 401_T 1.42 0.96
399_S 404_F 1.415 0.96
456_P 460_Q 1.415 0.96
34_I 83_M 1.406 0.95
401_T 405_A 1.398 0.95
47_D 53_K 1.394 0.95
268_W 271_E 1.393 0.95
351_V 392_P 1.393 0.95
428_L 477_F 1.393 0.95
103_M 108_A 1.388 0.95
513_L 547_G 1.384 0.95
316_A 332_S 1.383 0.95
233_S 237_K 1.381 0.95
276_T 372_Q 1.374 0.95
34_I 68_L 1.364 0.94
399_S 405_A 1.363 0.94
435_G 465_I 1.359 0.94
395_N 399_S 1.356 0.94
400_L 404_F 1.352 0.94
66_A 108_A 1.343 0.94
281_V 303_W 1.341 0.94
125_V 221_F 1.332 0.93
360_A 389_K 1.329 0.93
285_K 288_E 1.328 0.93
314_V 380_V 1.327 0.93
497_T 530_R 1.318 0.93
92_M 150_K 1.317 0.93
357_W 376_R 1.315 0.93
548_S 551_A 1.312 0.93
399_S 403_Y 1.308 0.93
500_A 530_R 1.289 0.92
397_F 506_E 1.288 0.92
468_S 472_Q 1.286 0.92
40_Q 43_Q 1.283 0.92
400_L 405_A 1.282 0.92
485_F 505_D 1.269 0.91
339_D 369_L 1.268 0.91
474_W 478_N 1.266 0.91
130_V 220_V 1.262 0.91
395_N 400_L 1.26 0.91
44_W 54_S 1.253 0.90
182_F 219_G 1.248 0.90
541_A 545_K 1.245 0.90
152_E 207_M 1.245 0.90
421_G 431_I 1.237 0.90
414_I 440_H 1.234 0.89
106_K 110_S 1.233 0.89
90_A 150_K 1.232 0.89
412_Q 416_R 1.231 0.89
123_P 263_V 1.231 0.89
417_L 445_F 1.229 0.89
508_S 511_Q 1.228 0.89
139_L 155_T 1.226 0.89
270_A 308_V 1.224 0.89
401_T 404_F 1.223 0.89
503_A 525_G 1.222 0.89
221_F 274_F 1.222 0.89
400_L 403_Y 1.22 0.89
485_F 512_L 1.219 0.89
391_T 394_E 1.218 0.89
431_I 473_L 1.215 0.88
188_H 397_F 1.214 0.88
261_A 265_N 1.205 0.88
425_V 490_M 1.204 0.88
237_K 240_A 1.203 0.88
449_F 549_W 1.2 0.88
262_R 265_N 1.194 0.87
383_R 387_R 1.19 0.87
311_V 364_Q 1.19 0.87
110_S 261_A 1.184 0.87
84_M 397_F 1.174 0.86
330_V 345_R 1.172 0.86
56_V 64_L 1.172 0.86
213_D 291_H 1.171 0.86
316_A 388_T 1.162 0.85
510_S 513_L 1.16 0.85
520_W 534_V 1.157 0.85
443_H 446_E 1.155 0.85
510_S 514_F 1.154 0.85
366_L 381_V 1.152 0.85
183_L 187_G 1.151 0.85
133_V 141_K 1.143 0.84
120_W 233_S 1.141 0.84
323_K 493_G 1.139 0.84
164_V 220_V 1.138 0.84
267_W 279_V 1.124 0.83
426_L 483_Q 1.123 0.83
310_Q 338_L 1.123 0.83
121_V 254_V 1.117 0.82
238_E 241_T 1.116 0.82
537_W 543_I 1.114 0.82
121_V 263_V 1.112 0.82
485_F 489_V 1.112 0.82
141_K 153_D 1.11 0.82
32_E 36_R 1.109 0.81
35_S 39_Q 1.108 0.81
545_K 549_W 1.102 0.81
234_D 237_K 1.101 0.81
370_A 376_R 1.092 0.80
98_T 292_W 1.092 0.80
511_Q 519_F 1.089 0.80
519_F 522_Q 1.087 0.80
235_R 286_E 1.085 0.79
421_G 473_L 1.082 0.79
395_N 398_N 1.081 0.79
312_A 333_L 1.08 0.79
139_L 164_V 1.08 0.79
335_P 342_K 1.075 0.79
438_A 462_T 1.074 0.79
120_W 232_M 1.065 0.78
331_A 346_V 1.064 0.78
424_Q 499_A 1.055 0.77
195_G 291_H 1.051 0.76
214_T 291_H 1.051 0.76
305_Y 372_Q 1.05 0.76
45_D 65_S 1.049 0.76
188_H 404_F 1.043 0.76
69_T 73_R 1.04 0.75
254_V 260_V 1.039 0.75
395_N 403_Y 1.039 0.75
314_V 379_D 1.036 0.75
398_N 401_T 1.026 0.74
517_E 521_Q 1.024 0.74
439_L 459_L 1.022 0.74
395_N 404_F 1.018 0.73
107_N 110_S 1.018 0.73
549_W 553_Q 1.018 0.73
231_L 234_D 1.01 0.72
459_L 474_W 1.009 0.72
92_M 149_L 1.008 0.72
66_A 70_Q 1.004 0.72
319_F 392_P 1 0.71
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
3sgiA10.96611000.078Contact Map0.596
2owoA10.94641000.083Contact Map0.724
4glxA10.94641000.084Contact Map0.72
1dgsA20.94641000.091Contact Map0.735
1zauA10.51791000.497Contact Map0.517
3uq8A10.50711000.498Contact Map0.756
3jslA20.51251000.506Contact Map0.824
4glwA20.49291000.508Contact Map0.703
1b04A20.51251000.514Contact Map0.787
1ta8A10.53571000.52Contact Map0.827
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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