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OPENSEQ.org
RLMI - Ribosomal RNA large subunit methyltransferase I
UniProt: P75876 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13725
Length: 396 (393)
Sequences: 926
Seq/Len: 2.36
RLMI
Paralog alert: 0.05 [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
53_G 63_A 3.913 1.00
51_A 65_V 3.627 1.00
219_V 296_V 3.526 1.00
297_I 329_L 3.507 1.00
83_L 105_I 3.197 1.00
123_F 152_S 3.127 1.00
365_Q 394_R 2.863 1.00
253_Q 257_D 2.86 1.00
235_A 248_S 2.788 1.00
305_V 314_A 2.629 1.00
80_S 146_T 2.602 1.00
117_I 124_L 2.53 1.00
223_R 245_Q 2.486 1.00
247_V 294_F 2.381 1.00
223_R 292_E 2.35 1.00
338_F 390_G 2.343 1.00
353_I 391_F 2.188 1.00
145_Q 175_T 2.098 1.00
52_R 67_T 2.071 1.00
36_L 57_P 2.061 0.99
245_Q 274_E 2.06 0.99
192_L 237_S 2.029 0.99
283_L 287_Y 2.013 0.99
322_N 337_T 1.995 0.99
187_E 212_R 1.985 0.99
319_K 359_D 1.923 0.99
295_D 330_N 1.876 0.99
336_L 390_G 1.867 0.99
193_L 261_Q 1.862 0.99
18_R 68_F 1.853 0.99
278_D 283_L 1.824 0.98
382_Y 385_G 1.816 0.98
227_C 280_V 1.791 0.98
222_K 296_V 1.783 0.98
102_Y 119_R 1.755 0.98
221_N 244_S 1.749 0.98
41_D 52_R 1.691 0.97
334_I 367_I 1.682 0.97
249_V 283_L 1.681 0.97
224_V 238_A 1.675 0.97
259_A 275_F 1.656 0.97
226_N 248_S 1.654 0.97
214_A 368_E 1.647 0.96
49_W 52_R 1.639 0.96
12_E 16_L 1.612 0.96
190_M 240_M 1.59 0.95
5_L 63_A 1.586 0.95
6_V 43_V 1.553 0.95
215_T 296_V 1.548 0.95
224_V 298_V 1.547 0.95
83_L 117_I 1.535 0.94
134_E 162_R 1.529 0.94
192_L 236_V 1.524 0.94
54_A 130_S 1.519 0.94
247_V 276_V 1.514 0.94
76_I 142_S 1.498 0.93
162_R 167_M 1.488 0.93
83_L 147_L 1.474 0.92
186_E 191_K 1.469 0.92
297_I 325_A 1.466 0.92
229_S 248_S 1.464 0.92
119_R 122_N 1.46 0.92
72_E 81_R 1.457 0.92
227_C 321_I 1.452 0.92
76_I 146_T 1.442 0.91
256_L 277_R 1.438 0.91
205_Y 303_K 1.438 0.91
208_Q 234_F 1.433 0.91
42_I 53_G 1.427 0.91
362_R 395_V 1.425 0.91
143_A 147_L 1.417 0.90
366_F 393_C 1.417 0.90
185_I 194_V 1.415 0.90
239_L 268_L 1.407 0.90
27_V 62_R 1.395 0.89
260_R 264_E 1.394 0.89
253_Q 277_R 1.386 0.89
316_R 359_D 1.369 0.88
261_Q 264_E 1.368 0.88
41_D 70_P 1.349 0.87
303_K 342_G 1.345 0.87
84_Q 88_K 1.342 0.87
191_K 265_L 1.34 0.87
287_Y 294_F 1.332 0.86
184_P 191_K 1.33 0.86
370_F 390_G 1.327 0.86
357_A 364_V 1.326 0.86
80_S 147_L 1.319 0.86
115_I 133_A 1.318 0.86
283_L 294_F 1.316 0.85
4_R 41_D 1.306 0.85
80_S 84_Q 1.305 0.85
66_W 74_I 1.304 0.85
336_L 392_A 1.298 0.84
311_L 344_M 1.291 0.84
235_A 273_A 1.287 0.84
286_T 290_R 1.287 0.84
240_M 268_L 1.285 0.84
223_R 244_S 1.26 0.82
223_R 330_N 1.259 0.82
201_K 340_C 1.253 0.81
303_K 306_E 1.253 0.81
154_Y 157_S 1.253 0.81
87_Q 104_L 1.244 0.81
247_V 292_E 1.243 0.81
293_K 330_N 1.241 0.81
278_D 286_T 1.239 0.80
305_V 344_M 1.226 0.79
192_L 204_Y 1.223 0.79
51_A 68_F 1.222 0.79
216_R 240_M 1.219 0.79
101_S 206_L 1.219 0.79
219_V 241_G 1.208 0.78
154_Y 197_Q 1.203 0.78
105_I 112_L 1.202 0.78
43_V 47_G 1.197 0.77
364_V 393_C 1.192 0.77
184_P 265_L 1.186 0.76
32_G 38_E 1.185 0.76
67_T 72_E 1.173 0.75
74_I 78_F 1.17 0.75
329_L 333_G 1.162 0.74
340_C 376_H 1.158 0.74
151_C 177_E 1.154 0.73
304_F 317_G 1.152 0.73
206_L 373_A 1.15 0.73
124_L 153_I 1.145 0.73
218_Y 334_I 1.141 0.72
100_D 121_G 1.14 0.72
224_V 243_C 1.14 0.72
350_Q 391_F 1.136 0.72
239_L 263_V 1.127 0.71
323_M 359_D 1.127 0.71
8_A 25_G 1.126 0.71
141_I 174_V 1.124 0.71
56_S 131_A 1.124 0.71
14_S 19_H 1.123 0.70
8_A 11_R 1.122 0.70
346_S 369_Q 1.115 0.70
137_R 155_D 1.112 0.69
210_D 374_A 1.107 0.69
315_C 352_I 1.105 0.69
11_R 25_G 1.102 0.68
299_M 337_T 1.101 0.68
163_K 169_L 1.096 0.68
338_F 370_F 1.092 0.67
329_L 335_L 1.089 0.67
248_S 273_A 1.089 0.67
315_C 348_L 1.087 0.67
223_R 247_V 1.087 0.67
21_W 61_I 1.085 0.67
323_M 327_Q 1.082 0.66
44_D 48_K 1.076 0.66
244_S 264_E 1.076 0.66
142_S 175_T 1.075 0.66
218_Y 368_E 1.074 0.65
322_N 357_A 1.07 0.65
4_R 43_V 1.067 0.65
155_D 172_G 1.06 0.64
279_D 320_D 1.057 0.64
76_I 139_A 1.056 0.64
128_L 134_E 1.054 0.63
20_P 385_G 1.053 0.63
92_W 222_K 1.052 0.63
288_R 327_Q 1.052 0.63
208_Q 338_F 1.052 0.63
117_I 145_Q 1.051 0.63
184_P 193_L 1.047 0.63
123_F 196_I 1.043 0.62
106_A 109_S 1.04 0.62
20_P 382_Y 1.039 0.62
337_T 349_F 1.038 0.62
252_S 255_A 1.038 0.62
253_Q 260_R 1.037 0.61
315_C 344_M 1.035 0.61
59_S 108_E 1.035 0.61
350_Q 369_Q 1.034 0.61
320_D 359_D 1.03 0.61
87_Q 91_D 1.028 0.60
79_F 83_L 1.023 0.60
39_T 66_W 1.022 0.60
24_S 62_R 1.021 0.60
41_D 49_W 1.02 0.60
257_D 260_R 1.019 0.59
7_L 50_L 1.018 0.59
67_T 78_F 1.015 0.59
326_I 395_V 1.012 0.59
128_L 133_A 1.011 0.59
334_I 392_A 1.01 0.58
14_S 26_A 1.009 0.58
226_N 235_A 1.008 0.58
208_Q 211_S 1.007 0.58
316_R 319_K 1.007 0.58
291_G 331_E 1.007 0.58
107_G 130_S 1.006 0.58
200_H 303_K 1.001 0.57
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
3vseA40.97981000.325Contact Map0.733
2b78A10.96721000.335Contact Map0.71
3c0kA211000.338Contact Map0.756
1wxxA40.96461000.374Contact Map0.685
4dmgA20.95451000.402Contact Map0.75
2as0A20.98481000.42Contact Map0.77
3v97A20.92421000.582Contact Map0.618
2igtA30.79291000.693Contact Map0.557
2frnA10.68181000.693Contact Map0.628
3a27A10.67421000.712Contact Map0.619
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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