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OPENSEQ.org
YDAM - Probable diguanylate cyclase YdaM
UniProt: P77302 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13355
Length: 410 (402)
Sequences: 1739
Seq/Len: 4.33
YDAM
Paralog alert: 0.59 [within 20: 0.02] - ratio of genomes with paralogs
Cluster includes: ADRA YDAM YDEH YEAP YFIN YNEF
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
323_R 326_D 4.362 1.00
251_H 255_H 3.767 1.00
267_F 337_V 3.284 1.00
288_L 374_I 2.908 1.00
384_S 387_E 2.673 1.00
294_R 404_R 2.511 1.00
288_L 352_A 2.45 1.00
393_D 397_Y 2.399 1.00
243_K 246_E 2.359 1.00
115_L 118_S 2.357 1.00
166_Y 210_A 2.355 1.00
322_A 328_V 2.29 1.00
242_Q 246_E 2.219 1.00
14_S 109_A 2.153 1.00
39_D 79_R 2.153 1.00
289_L 396_L 2.136 1.00
382_N 391_R 2.127 1.00
352_A 376_V 2.114 1.00
128_Q 132_A 2.101 1.00
17_W 106_G 2.07 1.00
266_Q 327_L 2.069 1.00
266_Q 270_I 2.026 1.00
170_T 210_A 2.025 1.00
114_G 118_S 2.021 1.00
296_K 300_D 1.985 1.00
78_Q 82_E 1.977 1.00
270_I 327_L 1.957 1.00
140_A 237_H 1.902 1.00
271_T 385_I 1.883 1.00
371_T 405_N 1.877 1.00
239_I 243_K 1.848 1.00
166_Y 170_T 1.839 1.00
218_Q 237_H 1.827 1.00
262_L 266_Q 1.822 1.00
20_S 25_Q 1.81 1.00
267_F 339_L 1.804 1.00
182_L 185_R 1.803 1.00
269_H 327_L 1.791 1.00
135_F 155_D 1.791 1.00
226_I 229_D 1.783 1.00
317_T 362_V 1.752 0.99
286_S 378_H 1.727 0.99
209_L 213_S 1.696 0.99
20_S 23_E 1.69 0.99
348_A 352_A 1.674 0.99
270_I 273_P 1.673 0.99
300_D 397_Y 1.646 0.99
344_P 347_T 1.64 0.99
300_D 393_D 1.613 0.99
111_A 115_L 1.613 0.99
304_H 393_D 1.606 0.99
333_G 393_D 1.605 0.99
53_S 56_K 1.603 0.99
356_R 407_V 1.596 0.99
300_D 304_H 1.591 0.99
293_D 403_G 1.584 0.99
290_I 372_V 1.566 0.99
204_N 243_K 1.551 0.98
280_A 323_R 1.547 0.98
296_K 397_Y 1.547 0.98
241_E 244_R 1.542 0.98
293_D 373_S 1.535 0.98
185_R 206_V 1.534 0.98
32_A 35_L 1.525 0.98
141_P 236_V 1.524 0.98
146_D 150_D 1.49 0.98
298_I 310_V 1.473 0.98
73_E 115_L 1.467 0.98
304_H 333_G 1.467 0.98
300_D 335_E 1.461 0.97
296_K 393_D 1.461 0.97
87_S 109_A 1.451 0.97
138_N 142_M 1.449 0.97
289_L 337_V 1.445 0.97
29_A 34_K 1.442 0.97
141_P 163_F 1.439 0.97
299_N 307_G 1.436 0.97
296_K 335_E 1.433 0.97
288_L 338_L 1.428 0.97
143_L 153_I 1.426 0.97
15_P 36_L 1.412 0.97
296_K 304_H 1.407 0.97
353_E 357_V 1.403 0.97
206_V 216_H 1.4 0.96
56_K 75_L 1.388 0.96
296_K 333_G 1.384 0.96
158_L 162_N 1.377 0.96
286_S 348_A 1.375 0.96
379_H 388_L 1.373 0.96
75_L 85_A 1.367 0.96
9_L 28_Y 1.367 0.96
9_L 16_V 1.364 0.96
17_W 26_L 1.363 0.96
209_L 215_R 1.363 0.96
304_H 397_Y 1.359 0.96
376_V 407_V 1.351 0.95
340_L 351_L 1.348 0.95
131_Y 135_F 1.347 0.95
159_A 162_N 1.336 0.95
246_E 250_E 1.336 0.95
262_L 327_L 1.335 0.95
18_I 30_N 1.328 0.95
269_H 280_A 1.328 0.95
373_S 393_D 1.326 0.95
44_Q 79_R 1.31 0.94
266_Q 269_H 1.305 0.94
332_G 397_Y 1.302 0.94
127_K 130_F 1.299 0.94
255_H 266_Q 1.289 0.94
313_A 316_R 1.286 0.94
143_L 234_C 1.285 0.94
156_A 161_L 1.273 0.93
17_W 33_A 1.257 0.93
291_D 393_D 1.257 0.93
132_A 136_L 1.256 0.93
305_S 390_K 1.255 0.93
313_A 317_T 1.251 0.92
335_E 393_D 1.248 0.92
332_G 393_D 1.243 0.92
18_I 103_I 1.234 0.92
41_T 44_Q 1.232 0.92
381_G 388_L 1.223 0.91
353_E 356_R 1.222 0.91
53_S 75_L 1.214 0.91
287_L 389_F 1.209 0.91
96_T 100_P 1.206 0.90
399_A 406_R 1.201 0.90
304_H 332_G 1.201 0.90
248_Q 252_A 1.196 0.90
335_E 397_Y 1.188 0.90
338_L 355_I 1.184 0.89
291_D 397_Y 1.179 0.89
333_G 397_Y 1.175 0.89
304_H 335_E 1.174 0.89
223_P 231_L 1.17 0.89
244_R 248_Q 1.166 0.88
78_Q 84_T 1.165 0.88
146_D 152_Q 1.161 0.88
309_E 312_C 1.159 0.88
360_A 405_N 1.155 0.88
300_D 333_G 1.138 0.87
124_Q 127_K 1.137 0.87
135_F 142_M 1.135 0.86
207_H 217_V 1.134 0.86
26_L 29_A 1.129 0.86
87_S 114_G 1.128 0.86
268_Y 386_D 1.127 0.86
128_Q 131_Y 1.126 0.86
33_A 37_M 1.126 0.86
277_Q 341_P 1.123 0.86
138_N 141_P 1.113 0.85
299_N 308_D 1.097 0.84
291_D 304_H 1.093 0.84
11_L 16_V 1.092 0.83
156_A 160_A 1.083 0.83
399_A 403_G 1.079 0.82
291_D 296_K 1.074 0.82
331_W 337_V 1.071 0.82
309_E 313_A 1.068 0.82
245_L 249_L 1.066 0.81
291_D 335_E 1.054 0.80
332_G 335_E 1.054 0.80
291_D 400_K 1.047 0.80
310_V 370_F 1.045 0.80
352_A 407_V 1.038 0.79
291_D 307_G 1.036 0.79
155_D 168_H 1.035 0.79
18_I 26_L 1.035 0.79
285_Y 388_L 1.032 0.78
398_R 401_N 1.03 0.78
221_A 232_M 1.028 0.78
251_H 260_G 1.028 0.78
105_E 110_P 1.026 0.78
17_W 30_N 1.024 0.78
300_D 332_G 1.023 0.78
331_W 389_F 1.019 0.77
249_L 254_H 1.018 0.77
8_T 12_L 1.014 0.77
130_F 144_L 1.014 0.77
381_G 391_R 1.012 0.77
39_D 44_Q 1.011 0.76
323_R 354_T 1.01 0.76
330_R 335_E 1.009 0.76
296_K 299_N 1.005 0.76
270_I 274_G 1.005 0.76
160_A 164_Y 1.004 0.76
314_L 359_V 1.003 0.76
302_Y 382_N 1.001 0.75
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
1w25A20.90241000.557Contact Map0.524
3ezuA10.77321000.579Contact Map0.493
3hvbA20.41461000.581Contact Map
4h54A20.65611000.586Contact Map0.566
3pjxA10.42441000.589Contact Map0.433
3ignA10.40241000.608Contact Map0.566
3mtkA20.38781000.615Contact Map0.644
3i5cA20.45611000.619Contact Map0.585
3qyyA20.40241000.62Contact Map0.502
3tvkA10.38781000.623Contact Map0.54
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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