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OPENSEQ.org
RSMB - Ribosomal RNA small subunit methyltransferase B
UniProt: P36929 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG12163
Length: 429 (424)
Sequences: 2130
Seq/Len: 5.02
RSMB
Paralog alert: 0.14 [within 20: 0.00] - ratio of genomes with paralogs
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
319_I 364_L 4.405 1.00
386_I 426_L 4.041 1.00
358_D 392_R 3.983 1.00
145_H 168_N 3.804 1.00
59_D 82_M 3.139 1.00
251_L 316_F 3.056 1.00
354_S 388_A 2.928 1.00
189_L 209_V 2.893 1.00
354_S 385_Q 2.851 1.00
305_R 355_E 2.821 1.00
272_Q 298_T 2.686 1.00
369_T 427_I 2.685 1.00
317_D 365_K 2.682 1.00
43_L 93_I 2.616 1.00
184_S 187_S 2.603 1.00
397_E 429_K 2.585 1.00
107_I 115_K 2.566 1.00
277_D 283_L 2.536 1.00
290_L 297_A 2.519 1.00
321_L 356_I 2.502 1.00
397_E 427_I 2.384 1.00
152_R 380_E 2.359 1.00
80_L 106_A 2.349 1.00
202_H 208_A 2.309 1.00
189_L 199_G 2.29 1.00
84_G 102_T 2.257 1.00
145_H 165_V 2.254 1.00
124_Q 128_Q 2.246 1.00
124_Q 127_R 2.237 1.00
188_W 228_V 2.235 1.00
183_H 188_W 2.229 1.00
244_P 248_E 2.198 1.00
398_L 424_A 2.188 1.00
248_E 318_R 2.187 1.00
389_F 396_A 2.178 1.00
361_W 396_A 2.138 1.00
245_Q 248_E 2.128 1.00
253_L 360_I 2.127 1.00
369_T 425_K 2.116 1.00
156_A 379_P 2.113 1.00
261_T 275_A 2.1 1.00
50_G 86_Y 2.096 1.00
399_C 427_I 2.086 1.00
388_A 392_R 2.037 1.00
56_S 147_S 2.02 1.00
268_A 271_A 2.02 1.00
350_A 385_Q 1.979 1.00
202_H 233_A 1.944 1.00
374_T 382_N 1.94 1.00
274_V 316_F 1.924 1.00
361_W 389_F 1.914 1.00
239_M 263_H 1.907 1.00
85_L 125_F 1.882 1.00
249_H 272_Q 1.848 1.00
371_V 425_K 1.844 1.00
182_H 294_G 1.836 1.00
358_D 393_T 1.802 1.00
364_L 428_K 1.801 1.00
283_L 301_Q 1.794 1.00
147_S 151_K 1.75 1.00
364_L 370_L 1.747 1.00
383_S 410_Q 1.742 1.00
328_T 378_L 1.728 1.00
199_G 209_V 1.697 1.00
120_G 124_Q 1.689 0.99
176_L 228_V 1.687 0.99
152_R 378_L 1.653 0.99
183_H 227_W 1.651 0.99
158_P 161_W 1.647 0.99
180_R 207_D 1.613 0.99
7_L 44_L 1.583 0.99
221_P 225_D 1.575 0.99
389_F 393_T 1.572 0.99
255_A 286_V 1.565 0.99
66_M 117_L 1.557 0.99
153_L 378_L 1.552 0.99
24_S 27_N 1.546 0.99
262_T 293_L 1.545 0.99
328_T 376_S 1.531 0.99
150_L 165_V 1.527 0.99
200_F 212_E 1.509 0.99
175_W 210_R 1.498 0.98
106_A 118_I 1.482 0.98
154_Q 161_W 1.481 0.98
185_R 201_P 1.476 0.98
56_S 339_W 1.464 0.98
399_C 425_K 1.46 0.98
408_G 422_F 1.456 0.98
12_A 83_V 1.446 0.98
361_W 370_L 1.443 0.98
47_L 83_V 1.421 0.98
54_T 57_Q 1.42 0.98
411_N 418_G 1.419 0.98
84_G 98_A 1.41 0.98
11_A 48_C 1.405 0.97
198_K 212_E 1.386 0.97
354_S 392_R 1.386 0.97
244_P 250_I 1.364 0.97
354_S 358_D 1.352 0.97
17_Q 21_Q 1.343 0.96
205_Y 233_A 1.341 0.96
119_N 123_R 1.338 0.96
242_L 264_I 1.333 0.96
243_A 318_R 1.332 0.96
384_L 387_K 1.326 0.96
238_C 423_Y 1.319 0.96
250_I 268_A 1.308 0.96
379_P 384_L 1.306 0.96
250_I 271_A 1.303 0.96
160_Q 415_A 1.302 0.96
261_T 297_A 1.3 0.95
152_R 343_D 1.3 0.95
323_A 356_I 1.294 0.95
100_A 104_E 1.29 0.95
195_A 222_G 1.287 0.95
58_L 86_Y 1.283 0.95
222_G 228_V 1.282 0.95
178_I 188_W 1.276 0.95
205_Y 208_A 1.264 0.95
99_L 126_Q 1.264 0.95
242_L 318_R 1.263 0.94
191_L 227_W 1.262 0.94
89_L 125_F 1.26 0.94
160_Q 414_G 1.254 0.94
241_W 423_Y 1.248 0.94
103_V 119_N 1.246 0.94
14_A 28_I 1.238 0.94
232_D 332_R 1.237 0.94
65_L 125_F 1.235 0.94
80_L 105_G 1.234 0.94
283_L 299_V 1.227 0.93
11_A 47_L 1.226 0.93
283_L 286_V 1.226 0.93
234_S 411_N 1.223 0.93
189_L 201_P 1.22 0.93
46_E 86_Y 1.217 0.93
153_L 165_V 1.209 0.93
157_Y 412_L 1.206 0.93
320_L 373_A 1.204 0.92
190_A 193_D 1.202 0.92
359_A 362_P 1.195 0.92
234_S 418_G 1.192 0.92
238_C 371_V 1.187 0.92
387_K 391_Q 1.185 0.92
229_T 262_T 1.172 0.91
80_L 102_T 1.169 0.91
57_Q 90_Y 1.164 0.91
253_L 319_I 1.161 0.91
200_F 210_R 1.158 0.90
185_R 189_L 1.146 0.90
185_R 208_A 1.135 0.89
182_H 227_W 1.134 0.89
208_A 236_Q 1.131 0.89
44_L 48_C 1.13 0.89
175_W 233_A 1.13 0.89
87_Q 102_T 1.126 0.89
181_T 268_A 1.125 0.89
54_T 144_L 1.121 0.88
244_P 267_V 1.115 0.88
261_T 273_V 1.11 0.88
180_R 266_E 1.108 0.88
264_I 273_V 1.107 0.88
161_W 165_V 1.102 0.87
58_L 85_L 1.095 0.87
341_R 345_D 1.087 0.86
186_D 201_P 1.086 0.86
175_W 202_H 1.076 0.85
332_R 419_D 1.076 0.85
101_E 104_E 1.076 0.85
14_A 29_L 1.075 0.85
346_I 350_A 1.072 0.85
364_L 396_A 1.072 0.85
242_L 371_V 1.07 0.85
14_A 44_L 1.069 0.85
284_S 287_Y 1.064 0.85
43_L 91_T 1.062 0.84
28_I 32_L 1.061 0.84
264_I 318_R 1.061 0.84
390_L 426_L 1.053 0.84
244_P 268_A 1.052 0.84
249_H 274_V 1.051 0.84
413_P 420_G 1.05 0.84
195_A 221_P 1.048 0.83
19_V 55_L 1.047 0.83
318_R 369_T 1.043 0.83
331_I 337_I 1.042 0.83
274_V 300_K 1.033 0.82
249_H 316_F 1.031 0.82
326_S 349_L 1.029 0.82
50_G 58_L 1.029 0.82
178_I 209_V 1.028 0.82
351_Q 355_E 1.026 0.82
14_A 32_L 1.024 0.81
242_L 320_L 1.007 0.80
386_I 390_L 1.005 0.80
395_D 429_K 1.005 0.80
10_M 36_V 1.003 0.79
357_L 370_L 1 0.79
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
1sqgA111000.261Contact Map0.832
2yxlA10.99771000.286Contact Map0.777
2frxA40.67831000.472Contact Map0.776
3m6wA10.65731000.478Contact Map0.767
1ixkA10.69231000.485Contact Map0.855
3m4xA10.65731000.491Contact Map0.8
2b9eA10.621000.521Contact Map0.781
3ajdA10.60141000.58Contact Map0.885
4fzvA10.6971000.607Contact Map0.754
3r2dA20.333399.90.801Contact Map0.759
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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