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OPENSEQ.org
YMDC - Uncharacterized protein YmdC
UniProt: P75919 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13875
Length: 473 (470)
Sequences: 1056
Seq/Len: 2.25
YMDC
Paralog alert: 0.43 [within 20: 0.01] - ratio of genomes with paralogs
Cluster includes: CLS YBHO YMDC
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
68_A 71_R 5.089 1.00
37_L 142_L 4.65 1.00
39_E 67_A 4.215 1.00
341_E 425_Q 3.87 1.00
141_T 176_V 3.55 1.00
308_K 341_E 3.507 1.00
45_L 136_V 3.301 1.00
381_F 399_G 3.017 1.00
39_E 64_A 2.994 1.00
34_R 134_F 2.941 1.00
332_R 344_E 2.51 1.00
37_L 167_M 2.383 1.00
46_D 76_R 2.34 1.00
67_A 71_R 2.289 1.00
38_A 64_A 2.228 1.00
24_L 33_A 2.128 1.00
283_D 310_A 2.108 1.00
55_D 58_G 2.105 1.00
142_L 167_M 2.076 0.99
312_L 423_A 2.053 0.99
138_G 177_A 2.051 0.99
388_D 395_N 2.024 0.99
135_T 141_T 1.983 0.99
21_L 247_T 1.968 0.99
281_R 377_G 1.944 0.99
377_G 412_D 1.932 0.99
66_L 98_P 1.914 0.99
337_R 428_L 1.85 0.98
282_I 375_I 1.849 0.98
380_V 411_I 1.841 0.98
309_I 340_V 1.794 0.98
313_T 328_Y 1.743 0.97
70_K 97_H 1.729 0.97
19_C 168_A 1.718 0.97
133_S 176_V 1.714 0.97
20_G 169_I 1.71 0.97
283_D 308_K 1.699 0.97
30_A 49_Y 1.662 0.96
374_S 408_A 1.661 0.96
176_V 398_M 1.646 0.96
141_T 173_V 1.633 0.96
168_A 400_F 1.63 0.96
66_L 70_K 1.623 0.96
426_L 434_I 1.611 0.95
402_I 407_L 1.56 0.94
278_P 282_I 1.552 0.94
147_N 152_Y 1.536 0.94
106_N 313_T 1.518 0.93
310_A 341_E 1.518 0.93
48_Q 129_M 1.514 0.93
289_F 311_I 1.503 0.93
274_I 375_I 1.473 0.92
36_R 40_M 1.461 0.91
42_E 409_Q 1.448 0.91
275_M 375_I 1.446 0.91
285_I 372_T 1.439 0.91
52_W 77_L 1.418 0.90
298_Q 302_M 1.401 0.89
80_D 128_R 1.4 0.89
380_V 408_A 1.39 0.88
47_V 65_L 1.389 0.88
2_P 5_A 1.378 0.88
22_F 33_A 1.373 0.88
129_M 183_Y 1.362 0.87
412_D 416_I 1.34 0.86
56_M 150_D 1.339 0.86
77_L 102_V 1.339 0.86
36_R 39_E 1.323 0.85
166_V 402_I 1.323 0.85
121_D 124_R 1.316 0.84
34_R 165_D 1.313 0.84
315_S 344_E 1.31 0.84
54_D 59_R 1.303 0.84
81_D 106_N 1.303 0.84
30_A 34_R 1.296 0.83
179_D 251_S 1.295 0.83
455_F 459_V 1.295 0.83
343_Y 425_Q 1.295 0.83
162_S 418_S 1.294 0.83
172_V 249_L 1.289 0.83
274_I 379_T 1.288 0.83
297_A 337_R 1.286 0.83
275_M 282_I 1.283 0.82
356_H 359_G 1.275 0.82
315_S 424_W 1.266 0.81
278_P 375_I 1.264 0.81
8_V 442_K 1.26 0.81
64_A 68_A 1.255 0.80
37_L 136_V 1.252 0.80
69_A 312_L 1.252 0.80
283_D 412_D 1.246 0.80
46_D 181_A 1.243 0.79
19_C 172_V 1.237 0.79
146_R 165_D 1.237 0.79
439_R 461_V 1.226 0.78
42_E 71_R 1.225 0.78
106_N 328_Y 1.222 0.78
135_T 176_V 1.221 0.78
50_Y 395_N 1.221 0.78
333_K 337_R 1.215 0.77
285_I 368_L 1.214 0.77
387_F 392_T 1.213 0.77
456_W 459_V 1.2 0.76
381_F 401_V 1.196 0.76
417_Q 421_D 1.195 0.76
462_R 466_I 1.194 0.76
26_K 160_L 1.192 0.75
37_L 140_V 1.191 0.75
279_S 378_K 1.19 0.75
454_S 457_K 1.188 0.75
143_V 176_V 1.185 0.75
51_I 395_N 1.176 0.74
146_R 314_N 1.173 0.74
42_E 139_V 1.173 0.74
35_Y 64_A 1.163 0.73
40_M 136_V 1.163 0.73
183_Y 252_D 1.162 0.73
281_R 412_D 1.16 0.73
312_L 415_F 1.157 0.72
33_A 36_R 1.155 0.72
9_L 443_K 1.153 0.72
410_L 413_K 1.152 0.72
48_Q 131_N 1.148 0.71
18_Q 171_P 1.145 0.71
33_A 37_L 1.138 0.70
419_Q 423_A 1.138 0.70
44_T 76_R 1.136 0.70
147_N 254_P 1.136 0.70
12_C 443_K 1.131 0.70
37_L 40_M 1.129 0.70
55_D 59_R 1.121 0.69
250_L 267_L 1.116 0.68
254_P 390_R 1.113 0.68
160_L 345_L 1.111 0.68
456_W 460_M 1.107 0.67
81_D 125_L 1.104 0.67
58_G 148_I 1.103 0.67
2_P 6_S 1.103 0.67
271_L 381_F 1.102 0.67
293_R 297_A 1.092 0.66
2_P 9_L 1.091 0.66
6_S 9_L 1.086 0.65
302_M 306_G 1.085 0.65
310_A 416_I 1.079 0.65
57_S 153_F 1.079 0.65
300_L 304_R 1.078 0.64
81_D 328_Y 1.077 0.64
313_T 332_R 1.076 0.64
76_R 101_E 1.076 0.64
438_D 447_L 1.073 0.64
326_A 467_L 1.066 0.63
82_N 408_A 1.065 0.63
313_T 344_E 1.063 0.63
379_T 401_V 1.063 0.63
313_T 324_V 1.06 0.63
334_K 337_R 1.058 0.62
435_N 448_K 1.056 0.62
424_W 430_R 1.056 0.62
24_L 142_L 1.056 0.62
165_D 314_N 1.052 0.62
3_R 42_E 1.05 0.61
33_A 167_M 1.043 0.61
46_D 74_R 1.043 0.61
49_Y 147_N 1.042 0.61
80_D 288_Y 1.042 0.61
76_R 103_R 1.038 0.60
30_A 146_R 1.037 0.60
278_P 376_D 1.036 0.60
325_H 399_G 1.032 0.59
149_G 152_Y 1.029 0.59
11_L 443_K 1.027 0.59
6_S 448_K 1.027 0.59
460_M 463_L 1.025 0.59
43_H 343_Y 1.024 0.59
443_K 447_L 1.024 0.59
8_V 13_S 1.022 0.58
249_L 400_F 1.021 0.58
429_D 459_V 1.02 0.58
106_N 324_V 1.02 0.58
309_I 335_L 1.016 0.58
329_A 332_R 1.016 0.58
336_L 428_L 1.012 0.57
30_A 165_D 1.011 0.57
329_A 344_E 1.011 0.57
80_D 388_D 1.005 0.56
352_S 355_L 1.004 0.56
281_R 308_K 1.002 0.56
3_R 433_R 1 0.56
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
1v0wA10.85621000.475Contact Map0.527
3hsiA30.81181000.479Contact Map0.508
2o8rA20.71461000.599Contact Map0.46
1xdpA20.71251000.609Contact Map0.41
1byrA10.325699.90.802Contact Map0.661
4ggjA10.410199.90.804Contact Map0.604
4gelA20.416599.90.815Contact Map0.681
2c1lA20.424999.80.826Contact Map0.524
3qphA10.503296.70.942Contact Map0.435
2f5tX10.327795.60.947Contact Map0.522
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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