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OPENSEQ.org
RHO - Transcription termination factor Rho
UniProt: P0AG30 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10845
Length: 419 (416)
Sequences: 1029
Seq/Len: 2.47
RHO
Paralog alert: 0.19 [within 20: 0.03] - 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
174_G 341_M 3.314 1.00
143_S 170_R 3.19 1.00
145_L 202_C 3.168 1.00
373_T 376_E 2.798 1.00
221_R 308_E 2.798 1.00
174_G 316_I 2.759 1.00
144_R 376_E 2.757 1.00
244_E 274_Y 2.498 1.00
202_C 261_I 2.481 1.00
374_Q 378_Q 2.298 1.00
205_M 228_V 2.183 1.00
140_H 367_K 2.172 1.00
170_R 201_D 2.011 0.99
9_T 13_E 1.991 0.99
181_K 351_E 1.984 0.99
84_S 89_F 1.959 0.99
17_L 38_I 1.951 0.99
257_K 310_G 1.925 0.99
178_A 182_A 1.907 0.99
157_L 400_I 1.903 0.99
98_S 118_E 1.857 0.99
123_K 126_N 1.85 0.99
162_L 187_L 1.849 0.99
203_V 258_K 1.837 0.99
372_T 380_M 1.835 0.99
332_Y 344_H 1.833 0.99
158_T 187_L 1.83 0.99
137_T 309_E 1.809 0.98
402_K 405_M 1.788 0.98
206_V 225_G 1.752 0.98
146_R 163_D 1.726 0.98
156_D 190_N 1.723 0.98
159_A 194_S 1.682 0.97
182_A 332_Y 1.622 0.96
21_M 38_I 1.599 0.96
82_S 85_Q 1.587 0.96
186_M 190_N 1.582 0.96
16_T 20_N 1.564 0.95
164_L 413_F 1.557 0.95
36_F 40_K 1.541 0.95
21_M 42_H 1.54 0.95
154_T 408_T 1.536 0.95
5_E 9_T 1.525 0.94
332_Y 351_E 1.435 0.92
271_A 297_P 1.419 0.91
122_D 126_N 1.406 0.91
25_N 41_Q 1.399 0.90
14_L 18_G 1.381 0.90
139_L 142_N 1.371 0.89
195_I 261_I 1.367 0.89
147_M 169_G 1.362 0.89
349_I 396_M 1.35 0.88
372_T 376_E 1.35 0.88
130_K 349_I 1.336 0.87
181_K 332_Y 1.336 0.87
156_D 159_A 1.329 0.87
174_G 188_L 1.329 0.87
381_W 384_R 1.328 0.87
29_M 37_A 1.326 0.87
316_I 327_M 1.319 0.87
280_A 291_A 1.318 0.86
34_I 42_H 1.295 0.85
178_A 188_L 1.293 0.85
284_V 291_A 1.276 0.84
140_H 218_E 1.275 0.84
5_E 20_N 1.273 0.84
96_T 249_K 1.271 0.84
39_L 43_A 1.264 0.83
83_P 112_A 1.251 0.82
14_L 29_M 1.248 0.82
52_D 98_S 1.245 0.82
415_M 418_R 1.241 0.82
132_L 135_N 1.24 0.82
231_T 239_H 1.234 0.81
21_M 41_Q 1.234 0.81
327_M 344_H 1.233 0.81
207_L 246_V 1.221 0.80
359_D 394_D 1.22 0.80
22_G 35_I 1.217 0.80
84_S 105_K 1.217 0.80
344_H 362_R 1.215 0.80
240_V 296_R 1.214 0.80
18_G 23_L 1.212 0.79
234_E 238_R 1.211 0.79
346_S 359_D 1.21 0.79
11_V 15_I 1.207 0.79
174_G 317_A 1.199 0.78
26_L 29_M 1.198 0.78
148_E 169_G 1.197 0.78
280_A 284_V 1.195 0.78
63_G 86_I 1.186 0.77
236_A 289_V 1.186 0.77
410_D 414_E 1.18 0.77
82_S 102_R 1.179 0.77
17_L 41_Q 1.177 0.77
174_G 343_L 1.176 0.77
8_N 19_E 1.174 0.76
236_A 378_Q 1.171 0.76
3_L 7_K 1.171 0.76
6_L 14_L 1.168 0.76
107_G 401_N 1.167 0.76
149_R 197_Y 1.161 0.75
55_L 81_V 1.158 0.75
23_L 26_L 1.153 0.75
327_M 346_S 1.145 0.74
17_L 21_M 1.141 0.73
281_S 292_N 1.139 0.73
359_D 392_E 1.139 0.73
100_K 115_K 1.139 0.73
179_P 182_A 1.137 0.73
108_E 258_K 1.136 0.73
196_A 204_L 1.135 0.73
326_K 329_E 1.134 0.73
9_T 17_L 1.132 0.73
10_P 332_Y 1.131 0.73
196_A 225_G 1.128 0.72
25_N 35_I 1.126 0.72
19_E 22_G 1.125 0.72
25_N 178_A 1.124 0.72
186_M 189_Q 1.123 0.72
10_P 13_E 1.119 0.71
393_I 396_M 1.118 0.71
206_V 219_M 1.118 0.71
55_L 97_I 1.118 0.71
26_L 34_I 1.113 0.71
100_K 117_N 1.112 0.71
157_L 403_L 1.11 0.70
31_K 34_I 1.108 0.70
18_G 31_K 1.107 0.70
276_T 291_A 1.106 0.70
210_D 239_H 1.104 0.70
43_A 100_K 1.102 0.70
161_V 358_I 1.101 0.70
19_E 24_E 1.099 0.69
169_G 367_K 1.097 0.69
165_A 399_L 1.096 0.69
42_H 47_E 1.095 0.69
37_A 40_K 1.093 0.69
14_L 38_I 1.088 0.68
9_T 21_M 1.086 0.68
168_I 316_I 1.085 0.68
364_G 384_R 1.076 0.67
319_A 335_F 1.074 0.67
145_L 261_I 1.071 0.67
364_G 368_E 1.069 0.66
398_F 402_K 1.069 0.66
205_M 246_V 1.069 0.66
212_R 215_E 1.069 0.66
44_K 47_E 1.068 0.66
19_E 41_Q 1.066 0.66
29_M 34_I 1.064 0.66
342_E 364_G 1.06 0.65
236_A 329_E 1.058 0.65
32_Q 36_F 1.058 0.65
150_G 156_D 1.056 0.65
17_L 42_H 1.051 0.64
346_S 392_E 1.049 0.64
257_K 309_E 1.048 0.64
105_K 113_L 1.046 0.64
344_H 351_E 1.044 0.64
249_K 276_T 1.044 0.64
102_R 108_E 1.042 0.63
35_I 38_I 1.04 0.63
55_L 63_G 1.038 0.63
80_Y 84_S 1.038 0.63
20_N 27_A 1.034 0.63
22_G 34_I 1.032 0.62
359_D 391_G 1.032 0.62
248_E 251_K 1.026 0.62
41_Q 47_E 1.024 0.61
307_V 310_G 1.023 0.61
3_L 36_F 1.022 0.61
379_K 413_F 1.022 0.61
327_M 362_R 1.022 0.61
43_A 50_F 1.022 0.61
360_Y 399_L 1.02 0.61
12_S 16_T 1.02 0.61
301_F 329_E 1.018 0.61
405_M 408_T 1.012 0.60
284_V 289_V 1.009 0.60
80_Y 112_A 1.009 0.60
289_V 329_E 1.008 0.60
283_K 292_N 1.007 0.59
189_Q 219_M 1.006 0.59
170_R 199_H 1.005 0.59
80_Y 108_E 1.004 0.59
130_K 247_I 1.003 0.59
25_N 38_I 1.001 0.59
35_I 40_K 1 0.59
368_E 377_L 1 0.59
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
3l0oA20.99281000.309Contact Map0.582
3iceA611000.474Contact Map0.627
2c61A20.91411000.559Contact Map0.316
1fx0A10.93561000.562Contact Map0.302
2ck3A30.9571000.563Contact Map0.378
3gqbB20.89741000.566Contact Map0.31
3vr4D30.90931000.568Contact Map0.367
2qe7A30.93321000.573Contact Map0.372
3oaaA120.94751000.577Contact Map0.361
1fx0B10.92841000.578Contact Map0.331
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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