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OPENSEQ.org
RLMJ - Ribosomal RNA large subunit methyltransferase J
UniProt: P37634 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG12234
Length: 280 (280)
Sequences: 480
Seq/Len: 1.71
RLMJ
Paralog alert: 0.01 [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
193_A 240_M 3.497 1.00
30_K 36_F 3.16 1.00
25_I 193_A 2.792 1.00
35_P 111_Q 2.616 1.00
24_L 252_Q 2.39 1.00
218_K 276_W 2.232 0.99
142_A 146_Q 2.187 0.99
29_L 160_L 2.172 0.99
222_I 253_M 2.131 0.99
13_H 238_S 2.068 0.99
21_V 253_M 2.016 0.99
3_S 199_V 1.98 0.98
2_L 199_V 1.943 0.98
5_R 123_D 1.861 0.97
267_A 270_G 1.85 0.97
45_A 123_D 1.807 0.97
38_Y 104_A 1.802 0.97
198_V 236_T 1.801 0.97
180_I 194_L 1.767 0.96
20_T 78_L 1.733 0.95
159_G 187_F 1.723 0.95
75_P 259_W 1.711 0.95
29_L 191_I 1.686 0.95
109_R 112_D 1.664 0.94
26_I 104_A 1.624 0.93
183_G 192_Y 1.62 0.93
145_F 172_D 1.617 0.93
61_Y 66_A 1.609 0.93
38_Y 116_L 1.588 0.92
250_E 276_W 1.586 0.92
13_H 226_V 1.582 0.92
110_E 136_R 1.576 0.92
211_L 241_I 1.574 0.91
113_S 156_S 1.529 0.90
16_V 81_Y 1.526 0.90
120_H 123_D 1.523 0.90
79_E 83_N 1.52 0.89
7_S 52_S 1.509 0.89
25_I 160_L 1.5 0.89
248_K 251_Q 1.499 0.89
225_A 237_A 1.472 0.87
71_Q 263_K 1.461 0.87
89_N 94_L 1.448 0.86
47_R 130_E 1.443 0.86
25_I 249_L 1.434 0.85
59_G 62_L 1.432 0.85
266_P 270_G 1.425 0.85
149_K 186_R 1.416 0.84
28_S 248_K 1.404 0.84
117_T 147_Q 1.391 0.83
27_E 80_A 1.386 0.83
3_S 173_Y 1.374 0.82
148_L 183_G 1.371 0.82
154_P 190_G 1.362 0.81
73_D 259_W 1.347 0.80
123_D 126_L 1.344 0.80
226_V 266_P 1.33 0.79
152_L 186_R 1.329 0.79
37_L 156_S 1.325 0.79
1_M 199_V 1.322 0.78
124_Y 141_K 1.315 0.78
7_S 54_H 1.313 0.78
83_N 87_H 1.31 0.78
52_S 57_R 1.304 0.77
250_E 254_N 1.293 0.76
161_I 187_F 1.289 0.76
41_T 144_G 1.286 0.76
167_Y 176_V 1.282 0.75
196_Y 239_G 1.28 0.75
69_W 94_L 1.28 0.75
276_W 280_E 1.27 0.74
154_P 187_F 1.263 0.74
75_P 247_W 1.26 0.74
2_L 235_M 1.25 0.73
2_L 119_L 1.242 0.72
157_R 189_T 1.236 0.72
37_L 115_Q 1.224 0.70
122_S 166_P 1.222 0.70
124_Y 139_V 1.216 0.70
5_R 40_D 1.213 0.69
8_F 57_R 1.212 0.69
5_R 45_A 1.198 0.68
27_E 107_L 1.19 0.67
20_T 256_V 1.19 0.67
140_E 151_K 1.179 0.66
167_Y 173_Y 1.178 0.66
26_I 30_K 1.177 0.66
43_A 116_L 1.168 0.65
186_R 221_Q 1.162 0.65
222_I 257_L 1.156 0.64
17_L 257_L 1.151 0.64
229_D 236_T 1.136 0.62
68_I 113_S 1.119 0.60
105_R 134_D 1.112 0.60
214_T 280_E 1.108 0.59
23_S 107_L 1.103 0.59
216_I 280_E 1.1 0.58
2_L 120_H 1.099 0.58
69_W 89_N 1.098 0.58
149_K 182_E 1.097 0.58
184_Y 216_I 1.091 0.57
215_G 218_K 1.087 0.57
259_W 263_K 1.083 0.57
180_I 192_Y 1.075 0.56
102_L 131_F 1.071 0.55
249_L 258_P 1.071 0.55
77_E 256_V 1.068 0.55
154_P 159_G 1.067 0.55
26_I 79_E 1.065 0.55
144_G 163_I 1.061 0.54
65_I 86_K 1.06 0.54
77_E 255_N 1.056 0.54
224_L 238_S 1.052 0.53
43_A 57_R 1.049 0.53
22_Q 193_A 1.046 0.53
258_P 262_S 1.044 0.52
42_H 144_G 1.041 0.52
198_V 237_A 1.032 0.51
24_L 77_E 1.031 0.51
145_F 166_P 1.029 0.51
58_T 207_M 1.024 0.50
253_M 274_V 1.023 0.50
28_S 247_W 1.023 0.50
3_S 166_P 1.02 0.50
1_M 172_D 1.016 0.49
2_L 173_Y 1.012 0.49
8_F 81_Y 1.008 0.49
160_L 193_A 1.006 0.48
13_H 17_L 1.004 0.48
207_M 247_W 1.001 0.48
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
2oo3A10.98931000.237Contact Map0.671
4bluA211000.257Contact Map0.682
2ozvA20.7643960.943Contact Map0.245
1o9gA10.778695.70.944Contact Map0.172
3tm4A20.895.20.946Contact Map0.281
3ldgA10.810795.20.946Contact Map0.363
3lduA10.803694.90.947Contact Map0.334
3k0bA10.817994.90.947Contact Map0.31
2fpoA60.682193.80.95Contact Map0.408
3lpmA20.814393.50.95Contact Map0.397
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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