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OPENSEQ.org
GMR - Cyclic di-GMP phosphodiesterase Gmr
UniProt: P77334 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13415
Length: 661 (558)
Sequences: 4437
Seq/Len: 7.95
GMR
Paralog alert: 0.80 [within 20: 0.08] - ratio of genomes with paralogs
Cluster includes: ADRB CSRD DOSP GMR RTN YAHA YCGF YCGG YDIV YHJH YHJK YJCC YLAB
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
439_L 650_F 4.525 1.00
584_Q 588_R 3.812 1.00
305_E 308_Q 3.8 1.00
477_L 519_E 3.795 1.00
642_A 645_M 3.786 1.00
235_I 239_T 3.706 1.00
472_G 503_Q 3.668 1.00
432_W 636_R 3.414 1.00
619_V 636_R 3.28 1.00
551_S 578_D 3.267 1.00
405_E 457_D 3.252 1.00
423_V 446_Q 2.889 1.00
251_M 319_L 2.87 1.00
573_A 596_S 2.869 1.00
514_K 553_L 2.859 1.00
447_S 451_G 2.807 1.00
516_V 520_L 2.73 1.00
608_Q 634_N 2.686 1.00
369_D 372_A 2.667 1.00
426_Y 482_Q 2.652 1.00
473_R 512_A 2.638 1.00
412_N 447_S 2.476 1.00
499_I 509_I 2.454 1.00
270_V 358_V 2.437 1.00
478_D 481_R 2.429 1.00
462_A 471_L 2.351 1.00
622_A 626_A 2.302 1.00
627_F 631_N 2.271 1.00
443_V 471_L 2.242 1.00
424_I 474_W 2.229 1.00
482_Q 486_W 2.221 1.00
487_R 526_P 2.206 1.00
254_L 309_V 2.173 1.00
334_A 360_I 2.169 1.00
447_S 450_R 2.168 1.00
425_H 646_P 2.157 1.00
482_Q 647_A 2.154 1.00
484_A 488_D 2.148 1.00
443_V 475_V 2.128 1.00
422_L 443_V 2.119 1.00
304_L 310_L 2.113 1.00
364_P 367_G 2.112 1.00
528_D 579_A 2.021 1.00
483_V 522_F 1.975 1.00
226_E 230_Q 1.969 1.00
122_S 221_T 1.961 1.00
250_A 254_L 1.924 1.00
272_L 356_C 1.873 1.00
146_L 192_C 1.863 1.00
547_I 557_V 1.859 1.00
625_D 636_R 1.858 1.00
448_P 451_G 1.856 1.00
639_F 644_P 1.855 1.00
625_D 641_F 1.849 1.00
275_D 357_S 1.824 1.00
270_V 334_A 1.804 1.00
227_R 230_Q 1.778 1.00
271_Y 381_M 1.763 1.00
367_G 376_H 1.757 1.00
497_V 527_I 1.754 1.00
423_V 452_L 1.75 1.00
421_Q 447_S 1.748 1.00
429_K 438_S 1.732 1.00
250_A 309_V 1.72 1.00
125_V 133_I 1.714 1.00
128_D 132_N 1.703 1.00
322_A 333_M 1.675 1.00
424_I 479_V 1.661 1.00
558_H 579_A 1.657 1.00
613_Q 634_N 1.643 1.00
597_Q 627_F 1.637 1.00
150_D 192_C 1.635 1.00
430_I 641_F 1.63 1.00
268_G 362_L 1.627 1.00
486_W 647_A 1.624 1.00
162_S 165_E 1.622 1.00
429_K 635_E 1.615 1.00
446_Q 452_L 1.614 1.00
604_V 631_N 1.609 1.00
295_D 298_L 1.601 1.00
477_L 520_L 1.598 1.00
276_N 389_R 1.595 1.00
429_K 528_D 1.593 1.00
478_D 482_Q 1.582 1.00
413_L 422_L 1.567 1.00
146_L 150_D 1.566 1.00
622_A 640_L 1.563 1.00
425_H 452_L 1.562 1.00
646_P 649_A 1.561 1.00
573_A 589_D 1.559 1.00
140_C 144_T 1.553 1.00
501_A 534_S 1.527 1.00
601_R 609_A 1.526 1.00
330_L 334_A 1.523 1.00
291_Q 294_R 1.514 1.00
591_H 623_K 1.512 1.00
355_S 390_G 1.511 1.00
281_N 289_G 1.505 1.00
123_A 143_Y 1.503 1.00
424_I 443_V 1.498 1.00
246_P 250_A 1.493 0.99
291_Q 348_G 1.49 0.99
278_K 382_Y 1.483 0.99
207_S 211_K 1.483 0.99
513_L 550_F 1.476 0.99
487_R 523_E 1.476 0.99
412_N 450_R 1.476 0.99
591_H 627_F 1.472 0.99
480_V 516_V 1.463 0.99
420_D 478_D 1.461 0.99
436_V 653_W 1.447 0.99
315_G 382_Y 1.442 0.99
601_R 631_N 1.442 0.99
295_D 345_F 1.437 0.99
286_H 378_D 1.434 0.99
474_W 478_D 1.434 0.99
415_K 421_Q 1.432 0.99
292_L 354_T 1.428 0.99
625_D 640_L 1.427 0.99
138_R 142_D 1.427 0.99
625_D 629_T 1.421 0.99
559_L 577_I 1.412 0.99
424_I 475_V 1.409 0.99
292_L 345_F 1.4 0.99
421_Q 445_W 1.396 0.99
274_L 296_V 1.392 0.99
255_I 370_S 1.389 0.99
590_I 627_F 1.38 0.99
443_V 474_W 1.375 0.99
459_I 468_I 1.373 0.99
253_D 309_V 1.368 0.99
271_Y 319_L 1.363 0.99
496_A 528_D 1.358 0.99
604_V 633_I 1.358 0.99
556_Q 578_D 1.35 0.99
225_E 228_R 1.348 0.99
335_S 339_T 1.339 0.99
621_S 624_E 1.336 0.99
117_V 135_R 1.334 0.99
251_M 321_L 1.333 0.99
429_K 579_A 1.331 0.99
591_H 597_Q 1.33 0.99
450_R 457_D 1.323 0.98
447_S 453_I 1.319 0.98
409_L 461_Y 1.318 0.98
527_I 555_A 1.315 0.98
378_D 382_Y 1.314 0.98
483_V 495_V 1.314 0.98
384_A 393_C 1.31 0.98
191_T 195_Q 1.31 0.98
517_L 522_F 1.307 0.98
616_A 633_I 1.302 0.98
120_A 124_I 1.298 0.98
276_N 410_D 1.273 0.98
499_I 529_V 1.272 0.98
273_D 382_Y 1.269 0.98
509_I 513_L 1.269 0.98
230_Q 234_R 1.263 0.98
476_I 497_V 1.247 0.98
341_L 356_C 1.246 0.98
450_R 453_I 1.244 0.97
642_A 653_W 1.244 0.97
317_E 378_D 1.241 0.97
239_T 250_A 1.228 0.97
235_I 244_G 1.225 0.97
139_L 142_D 1.222 0.97
636_R 641_F 1.221 0.97
127_L 133_I 1.22 0.97
366_H 394_V 1.22 0.97
387_G 393_C 1.218 0.97
170_R 174_R 1.216 0.97
173_N 176_F 1.216 0.97
282_D 382_Y 1.215 0.97
459_I 532_T 1.208 0.97
284_Y 350_I 1.204 0.97
262_A 305_E 1.202 0.97
477_L 516_V 1.198 0.97
280_V 292_L 1.198 0.97
232_R 235_I 1.197 0.97
602_A 609_A 1.196 0.97
579_A 615_I 1.194 0.97
384_A 391_Q 1.193 0.97
351_E 415_K 1.193 0.97
517_L 555_A 1.192 0.97
516_V 519_E 1.19 0.96
136_F 140_C 1.188 0.96
229_A 233_L 1.183 0.96
266_K 365_E 1.182 0.96
454_P 460_S 1.177 0.96
608_Q 614_V 1.176 0.96
341_L 345_F 1.173 0.96
232_R 236_L 1.169 0.96
303_C 337_I 1.169 0.96
347_I 352_V 1.167 0.96
223_I 227_R 1.165 0.96
320_V 337_I 1.165 0.96
282_D 378_D 1.163 0.96
147_K 150_D 1.162 0.96
288_F 350_I 1.161 0.96
523_E 526_P 1.159 0.96
528_D 558_H 1.156 0.96
278_K 282_D 1.155 0.96
326_S 329_A 1.152 0.96
296_V 341_L 1.145 0.95
228_R 232_R 1.144 0.95
613_Q 635_E 1.14 0.95
453_I 460_S 1.139 0.95
136_F 141_E 1.137 0.95
110_L 114_E 1.135 0.95
126_I 137_N 1.13 0.95
125_V 218_C 1.13 0.95
172_N 176_F 1.129 0.95
494_R 556_Q 1.127 0.95
315_G 378_D 1.126 0.95
125_V 140_C 1.123 0.95
331_E 394_V 1.121 0.95
140_C 151_V 1.121 0.95
577_I 612_L 1.12 0.95
645_M 653_W 1.115 0.94
275_D 388_G 1.114 0.94
584_Q 618_G 1.109 0.94
273_D 385_K 1.106 0.94
123_A 220_G 1.102 0.94
421_Q 448_P 1.101 0.94
137_N 140_C 1.098 0.94
286_H 382_Y 1.098 0.94
396_T 399_M 1.096 0.94
360_I 392_F 1.096 0.94
173_N 177_F 1.092 0.94
268_G 330_L 1.091 0.94
462_A 466_G 1.09 0.93
579_A 613_Q 1.09 0.93
275_D 389_R 1.089 0.93
415_K 419_N 1.086 0.93
144_T 151_V 1.084 0.93
580_I 607_A 1.083 0.93
338_L 392_F 1.076 0.93
431_T 435_E 1.075 0.93
305_E 333_M 1.071 0.93
188_W 198_F 1.071 0.93
429_K 615_I 1.07 0.93
383_T 393_C 1.069 0.93
626_A 630_K 1.069 0.93
422_L 474_W 1.067 0.93
250_A 253_D 1.066 0.92
479_V 495_V 1.066 0.92
338_L 358_V 1.064 0.92
513_L 555_A 1.062 0.92
532_T 617_E 1.057 0.92
441_A 495_V 1.056 0.92
529_V 557_V 1.055 0.92
270_V 320_V 1.053 0.92
319_L 374_I 1.053 0.92
413_L 416_A 1.048 0.92
388_G 391_Q 1.047 0.92
405_E 450_R 1.047 0.92
505_A 538_E 1.044 0.91
410_D 414_R 1.043 0.91
298_L 301_L 1.042 0.91
363_S 373_I 1.042 0.91
254_L 257_H 1.042 0.91
463_E 468_I 1.033 0.91
406_Y 464_E 1.032 0.91
426_Y 441_A 1.028 0.91
299_A 345_F 1.026 0.90
287_L 371_T 1.025 0.90
379_T 399_M 1.021 0.90
360_I 394_V 1.018 0.90
573_A 593_Q 1.018 0.90
416_A 422_L 1.017 0.90
430_I 436_V 1.015 0.90
476_I 513_L 1.012 0.90
270_V 322_A 1.009 0.89
117_V 122_S 1.009 0.89
564_T 586_F 1.001 0.89
125_V 137_N 1 0.89
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
3hvbA20.65361000.365Contact Map0.67
3pjxA10.63841000.39Contact Map0.573
3gfzA20.591000.471Contact Map0.503
4hjfA10.49321000.502Contact Map0.607
4hu4A20.43721000.548Contact Map0.701
2r6oA20.42211000.585Contact Map0.797
3sy8A40.59611000.587Contact Map0.725
3hv8A10.40241000.608Contact Map0.673
4fojA10.39491000.61Contact Map0.677
3s83A10.38581000.615Contact Map0.628
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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