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OPENSEQ.org
RLME - Ribosomal RNA large subunit methyltransferase E
UniProt: P0C0R7 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG11507
Length: 209 (206)
Sequences: 1129
Seq/Len: 5.48
RLME
Paralog alert: 0.11 [within 20: 0.01] - 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
162_V 203_V 4.53 1.00
29_K 37_F 4.396 1.00
43_Q 72_Q 4.309 1.00
36_W 68_Y 2.706 1.00
119_Q 156_A 2.654 1.00
25_Q 29_K 2.558 1.00
69_V 122_M 2.519 1.00
33_S 64_G 2.418 1.00
147_A 161_F 2.399 1.00
73_I 79_I 2.346 1.00
40_D 68_Y 2.27 1.00
66_S 93_V 2.244 1.00
42_I 48_L 2.198 1.00
189_K 193_S 2.178 1.00
66_S 81_A 2.141 1.00
60_A 81_A 2.081 1.00
42_I 188_R 1.999 1.00
46_D 188_R 1.956 1.00
183_T 206_G 1.951 1.00
56_V 118_V 1.883 1.00
155_L 159_G 1.855 1.00
94_D 112_R 1.852 1.00
60_A 87_M 1.761 1.00
178_I 204_A 1.746 1.00
86_P 97_Q 1.707 1.00
98_G 105_V 1.673 1.00
44_Q 72_Q 1.66 1.00
31_L 37_F 1.628 0.99
155_L 182_F 1.608 0.99
81_A 87_M 1.554 0.99
16_E 196_R 1.533 0.99
100_F 150_M 1.521 0.99
22_Y 191_D 1.504 0.99
66_S 95_F 1.476 0.99
90_I 93_V 1.468 0.99
129_M 166_F 1.442 0.98
55_V 73_I 1.439 0.98
70_V 93_V 1.425 0.98
192_S 201_Y 1.415 0.98
144_V 165_V 1.398 0.98
152_R 181_L 1.374 0.97
137_I 168_G 1.373 0.97
47_K 50_K 1.363 0.97
32_R 67_Q 1.36 0.97
58_L 147_A 1.359 0.97
160_S 205_T 1.333 0.97
188_R 203_V 1.326 0.97
48_L 160_S 1.313 0.96
108_A 111_E 1.296 0.96
103_E 107_K 1.289 0.96
175_L 179_R 1.285 0.96
183_T 208_K 1.269 0.95
49_F 72_Q 1.265 0.95
110_L 153_D 1.242 0.95
56_V 109_L 1.231 0.94
36_W 40_D 1.229 0.94
78_R 94_D 1.216 0.94
107_K 111_E 1.206 0.94
165_V 202_I 1.196 0.93
186_K 205_T 1.196 0.93
70_V 92_G 1.181 0.93
25_Q 37_F 1.175 0.92
148_L 178_I 1.157 0.92
85_L 128_N 1.156 0.92
40_D 44_Q 1.154 0.91
81_A 93_V 1.15 0.91
114_G 121_V 1.148 0.91
113_V 118_V 1.145 0.91
52_G 120_V 1.138 0.91
152_R 177_E 1.126 0.90
59_G 125_M 1.124 0.90
8_A 12_R 1.119 0.90
108_A 112_R 1.113 0.89
135_V 138_P 1.106 0.89
174_Y 178_I 1.101 0.89
104_L 108_A 1.099 0.89
184_K 205_T 1.093 0.88
48_L 120_V 1.089 0.88
176_R 180_S 1.088 0.88
49_F 122_M 1.088 0.88
117_K 157_P 1.076 0.87
81_A 95_F 1.069 0.87
56_V 150_M 1.064 0.86
6_R 11_S 1.059 0.86
110_L 154_V 1.058 0.86
15_Q 19_S 1.054 0.86
82_C 109_L 1.051 0.85
40_D 43_Q 1.05 0.85
132_T 135_V 1.044 0.85
125_M 147_A 1.038 0.84
79_I 93_V 1.033 0.84
33_S 201_Y 1.032 0.84
40_D 72_Q 1.028 0.84
167_Q 200_V 1.025 0.83
159_G 182_F 1.019 0.83
5_K 8_A 1.009 0.82
101_R 146_L 1.007 0.82
55_V 77_G 1.005 0.82
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
3r24A10.9331000.368Contact Map0.449
2xyqA10.82781000.446Contact Map0.433
4k6mA20.90431000.478Contact Map0.47
2px2A20.91871000.486Contact Map0.461
3p8zA20.91391000.512Contact Map0.487
3lkzA20.91391000.514Contact Map0.539
1ej0A10.86121000.569Contact Map0.802
2nyuA20.86121000.608Contact Map0.78
2wa2A20.91391000.619Contact Map0.467
2plwA10.86121000.625Contact Map0.84
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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