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OPENSEQ.org
SRMB - ATP-dependent RNA helicase SrmB
UniProt: P21507 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10975
Length: 444 (378)
Sequences: 10591
Seq/Len: 28.02
SRMB
Paralog alert: 0.86 [within 20: 0.09] - ratio of genomes with paralogs
Cluster includes: DBPA DEAD RHLB RHLE SRMB
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
59_L 96_A 4.863 1.00
62_A 79_I 4.237 1.00
12_D 64_Q 4.023 1.00
132_A 137_L 3.975 1.00
38_A 185_L 3.743 1.00
30_I 46_G 3.598 1.00
83_T 92_V 3.559 1.00
42_R 208_V 3.067 1.00
255_V 261_V 3.067 1.00
21_D 102_H 2.855 1.00
140_Y 145_N 2.834 1.00
292_K 296_E 2.811 1.00
293_R 298_R 2.718 1.00
258_R 281_E 2.553 1.00
13_E 17_E 2.458 1.00
276_C 299_V 2.442 1.00
325_M 350_S 2.421 1.00
62_A 155_I 2.363 1.00
142_K 173_H 2.316 1.00
319_H 349_I 2.313 1.00
336_I 348_A 2.303 1.00
24_F 56_A 2.302 1.00
93_S 97_R 2.274 1.00
95_H 98_E 2.248 1.00
93_S 107_I 2.243 1.00
224_Q 336_I 2.205 1.00
316_D 344_R 2.199 1.00
21_D 101_K 2.192 1.00
7_S 20_Q 2.151 1.00
172_E 202_R 2.091 1.00
108_A 127_Q 2.042 1.00
273_I 301_V 2.038 1.00
80_L 151_V 2.017 1.00
224_Q 332_Y 2.006 1.00
265_A 275_N 1.991 1.00
154_L 175_A 1.975 1.00
15_L 64_Q 1.948 1.00
78_R 128_D 1.932 1.00
255_V 303_V 1.922 1.00
223_H 347_T 1.916 1.00
18_A 102_H 1.908 1.00
161_R 164_D 1.899 1.00
17_E 102_H 1.857 1.00
96_A 107_I 1.845 1.00
117_M 121_E 1.834 1.00
82_L 137_L 1.827 1.00
265_A 277_Y 1.796 1.00
308_A 312_I 1.783 1.00
22_K 98_E 1.78 1.00
62_A 153_T 1.778 1.00
37_P 40_D 1.773 1.00
65_H 153_T 1.76 1.00
138_L 173_H 1.76 1.00
197_Q 209_E 1.754 1.00
289_E 293_R 1.751 1.00
37_P 208_V 1.735 1.00
322_N 350_S 1.734 1.00
260_R 324_D 1.728 1.00
93_S 109_T 1.724 1.00
168_A 172_E 1.721 1.00
17_E 21_D 1.705 1.00
96_A 129_I 1.7 1.00
261_V 277_Y 1.698 1.00
262_H 277_Y 1.687 1.00
78_R 152_E 1.684 1.00
240_V 271_A 1.674 1.00
46_G 187_F 1.659 1.00
41_G 183_Q 1.65 1.00
11_L 60_L 1.649 1.00
139_Q 143_E 1.641 1.00
219_R 222_I 1.637 1.00
274_N 300_N 1.634 1.00
276_C 293_R 1.625 1.00
221_K 345_K 1.623 1.00
225_W 347_T 1.62 1.00
76_P 150_A 1.601 1.00
322_N 336_I 1.596 1.00
58_Y 92_V 1.585 1.00
276_C 290_A 1.566 1.00
304_A 308_A 1.553 1.00
141_I 177_E 1.549 1.00
65_H 152_E 1.548 1.00
19_L 24_F 1.545 1.00
261_V 279_E 1.54 1.00
364_G 370_P 1.522 1.00
294_L 302_L 1.508 1.00
81_I 96_A 1.502 1.00
253_V 301_V 1.5 1.00
222_I 340_A 1.494 1.00
251_S 321_F 1.482 1.00
235_K 324_D 1.469 1.00
5_T 8_E 1.469 1.00
255_V 264_L 1.468 1.00
197_Q 201_E 1.466 1.00
326_P 332_Y 1.457 1.00
19_L 56_A 1.441 1.00
236_T 267_W 1.426 1.00
268_L 303_V 1.424 1.00
89_A 109_T 1.414 1.00
96_A 131_V 1.409 1.00
242_L 349_I 1.4 0.99
90_M 288_N 1.386 0.99
127_Q 130_V 1.386 0.99
64_Q 68_D 1.368 0.99
82_L 132_A 1.353 0.99
38_A 44_V 1.348 0.99
10_E 16_L 1.313 0.99
83_T 89_A 1.308 0.99
132_A 146_F 1.306 0.99
108_A 130_V 1.302 0.99
231_D 234_H 1.297 0.99
121_E 125_E 1.293 0.99
251_S 301_V 1.275 0.99
79_I 153_T 1.268 0.99
120_A 140_Y 1.267 0.99
110_I 130_V 1.263 0.99
120_A 145_N 1.258 0.99
250_R 316_D 1.252 0.99
257_K 260_R 1.249 0.99
20_Q 25_T 1.244 0.98
58_Y 83_T 1.24 0.98
223_H 372_K 1.237 0.98
156_L 162_M 1.236 0.98
148_C 151_V 1.229 0.98
264_L 303_V 1.223 0.98
293_R 299_V 1.218 0.98
223_H 345_K 1.217 0.98
138_L 170_D 1.215 0.98
306_D 335_R 1.214 0.98
43_D 205_E 1.2 0.98
265_A 269_R 1.196 0.98
37_P 210_V 1.193 0.98
6_F 27_P 1.192 0.98
43_D 204_L 1.191 0.98
170_D 173_H 1.186 0.98
262_H 279_E 1.184 0.98
325_M 363_V 1.177 0.98
116_Y 143_E 1.169 0.97
328_S 331_T 1.165 0.97
108_A 122_V 1.164 0.97
17_E 20_Q 1.156 0.97
106_D 128_D 1.154 0.97
282_M 290_A 1.137 0.97
115_A 118_N 1.137 0.97
204_L 207_P 1.13 0.97
138_L 142_K 1.123 0.97
265_A 303_V 1.118 0.96
193_G 198_D 1.113 0.96
319_H 347_T 1.09 0.96
248_A 251_S 1.081 0.95
141_I 148_C 1.078 0.95
39_L 64_Q 1.074 0.95
252_I 304_A 1.073 0.95
37_P 44_V 1.068 0.95
86_R 284_Q 1.067 0.95
16_L 19_L 1.066 0.95
244_K 273_I 1.065 0.95
63_L 103_T 1.061 0.95
290_A 299_V 1.055 0.95
42_R 206_D 1.05 0.94
65_H 183_Q 1.045 0.94
322_N 348_A 1.04 0.94
35_I 39_L 1.032 0.94
249_T 318_S 1.032 0.94
41_G 65_H 1.027 0.94
63_L 100_A 1.023 0.93
356_D 359_L 1.019 0.93
160_D 334_H 1.013 0.93
241_H 245_Q 1.01 0.93
221_K 340_A 1.007 0.93
175_A 182_K 1.001 0.92
239_L 253_V 1 0.92
7_S 16_L 1 0.92
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
2db3A40.84461000.329Contact Map0.845
3sqwA10.99551000.339Contact Map0.746
3i5xA10.97971000.347Contact Map0.756
3fmpB20.85361000.349Contact Map0.796
4c9bA10.84911000.349Contact Map0.78
2j0sA10.84911000.35Contact Map0.778
3eiqA20.84911000.351Contact Map0.732
2i4iA10.87161000.357Contact Map0.783
3fhtA20.85361000.369Contact Map0.825
1s2mA10.86261000.375Contact Map0.82
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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