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OPENSEQ.org
RFAG - Lipopolysaccharide core biosynthesis protein RfaG
UniProt: P25740 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG11339
Length: 374 (365)
Sequences: 20019
Seq/Len: 54.85
RFAG
Paralog alert: 0.87 [within 20: 0.39] - ratio of genomes with paralogs
Cluster includes: GLGA RFAB RFAG WBBK WCAC WCAI WCAL
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
200_L 271_A 4.233 1.00
230_L 256_H 3.614 1.00
139_K 163_Q 3.141 1.00
2_I 33_H 2.992 1.00
216_E 245_L 2.918 1.00
220_S 328_N 2.434 1.00
220_S 325_E 2.383 1.00
218_L 231_L 2.379 1.00
35_R 81_A 2.374 1.00
196_Q 230_L 2.37 1.00
274_L 290_A 2.363 1.00
349_R 353_D 2.33 1.00
148_I 152_Q 2.318 1.00
201_Q 211_V 2.268 1.00
301_A 306_A 2.268 1.00
35_R 52_I 2.216 1.00
224_S 332_R 2.209 1.00
85_V 109_Q 2.187 1.00
198_L 232_F 2.154 1.00
197_N 335_L 2.109 1.00
222_P 254_N 2.104 1.00
301_A 319_A 2.098 1.00
216_E 324_Q 2.076 1.00
30_R 365_A 2.064 1.00
234_V 267_L 2.053 1.00
319_A 326_Q 2.039 1.00
232_F 258_F 2.034 1.00
309_I 315_G 2.004 1.00
351_Y 357_L 1.961 1.00
210_G 213_R 1.933 1.00
337_Q 340_L 1.921 1.00
199_L 273_L 1.908 1.00
35_R 79_H 1.88 1.00
333_K 340_L 1.877 1.00
294_G 349_R 1.85 1.00
4_A 81_A 1.837 1.00
246_A 257_F 1.83 1.00
310_A 313_N 1.827 1.00
4_A 37_Y 1.824 1.00
145_D 148_I 1.804 1.00
362_E 366_D 1.804 1.00
316_T 330_V 1.797 1.00
245_L 249_L 1.794 1.00
299_T 317_V 1.793 1.00
214_S 275_L 1.791 1.00
323_S 326_Q 1.781 1.00
199_L 331_L 1.775 1.00
247_E 252_R 1.769 1.00
314_C 351_Y 1.767 1.00
108_A 137_S 1.743 1.00
330_V 333_K 1.742 1.00
246_A 251_V 1.725 1.00
324_Q 328_N 1.718 1.00
26_T 29_A 1.716 1.00
221_L 332_R 1.707 1.00
198_L 270_A 1.706 1.00
205_D 233_V 1.692 1.00
145_D 307_H 1.646 1.00
326_Q 330_V 1.639 1.00
350_H 354_T 1.638 1.00
214_S 231_L 1.63 1.00
341_R 345_A 1.626 1.00
148_I 164_I 1.618 1.00
202_V 264_V 1.615 1.00
145_D 149_A 1.613 1.00
263_D 266_E 1.606 1.00
210_G 279_Y 1.603 1.00
340_L 343_A 1.591 1.00
333_K 337_Q 1.586 1.00
244_A 248_K 1.568 1.00
168_G 360_L 1.556 1.00
3_V 32_H 1.554 1.00
310_A 351_Y 1.553 1.00
274_L 295_L 1.551 1.00
197_N 272_D 1.551 1.00
219_A 249_L 1.547 1.00
198_L 230_L 1.543 1.00
232_F 256_H 1.527 1.00
32_H 368_I 1.516 1.00
343_A 347_N 1.513 1.00
313_N 347_N 1.508 1.00
145_D 164_I 1.504 1.00
148_I 162_F 1.496 1.00
310_A 314_C 1.481 1.00
26_T 364_A 1.46 1.00
332_R 336_T 1.456 1.00
142_M 162_F 1.452 1.00
1_M 32_H 1.438 1.00
35_R 50_E 1.43 1.00
347_N 350_H 1.422 1.00
158_E 161_R 1.421 1.00
287_L 305_Y 1.42 1.00
316_T 333_K 1.417 1.00
217_A 327_L 1.408 1.00
271_A 295_L 1.405 0.99
26_T 361_P 1.393 0.99
212_D 279_Y 1.385 0.99
199_L 275_L 1.378 0.99
234_V 258_F 1.372 0.99
218_L 229_T 1.369 0.99
350_H 353_D 1.368 0.99
245_L 248_K 1.364 0.99
318_I 330_V 1.362 0.99
5_F 27_V 1.343 0.99
202_V 234_V 1.342 0.99
5_F 87_F 1.331 0.99
208_R 280_Q 1.329 0.99
212_D 245_L 1.327 0.99
338_S 341_R 1.314 0.99
211_V 233_V 1.302 0.99
299_T 305_Y 1.294 0.99
362_E 365_A 1.291 0.99
202_V 268_M 1.289 0.99
21_M 25_S 1.284 0.99
354_T 357_L 1.274 0.99
152_Q 159_P 1.271 0.99
319_A 323_S 1.264 0.99
264_V 268_M 1.264 0.99
200_L 234_V 1.264 0.99
342_M 346_E 1.263 0.99
299_T 309_I 1.258 0.99
174_K 293_A 1.255 0.99
5_F 24_A 1.253 0.99
198_L 272_D 1.229 0.98
141_M 367_I 1.227 0.98
143_L 167_P 1.225 0.98
28_A 31_G 1.218 0.98
261_R 267_L 1.218 0.98
220_S 324_Q 1.215 0.98
142_M 148_I 1.206 0.98
345_A 348_A 1.204 0.98
221_L 229_T 1.199 0.98
149_A 152_Q 1.198 0.98
300_T 318_I 1.194 0.98
149_A 153_K 1.189 0.98
141_M 165_L 1.18 0.98
213_R 324_Q 1.178 0.98
326_Q 329_E 1.177 0.98
206_F 238_K 1.176 0.98
174_K 265_S 1.173 0.98
283_A 288_L 1.169 0.97
278_A 281_E 1.16 0.97
298_L 318_I 1.158 0.97
197_N 273_L 1.157 0.97
295_L 345_A 1.146 0.97
232_F 267_L 1.142 0.97
86_G 106_K 1.141 0.97
166_P 307_H 1.14 0.97
30_R 368_I 1.139 0.97
19_D 285_I 1.138 0.97
201_Q 214_S 1.138 0.97
213_R 279_Y 1.134 0.97
2_I 35_R 1.133 0.97
24_A 36_V 1.13 0.97
189_K 266_E 1.128 0.97
276_H 286_V 1.127 0.97
142_M 151_F 1.11 0.96
346_E 350_H 1.108 0.96
290_A 295_L 1.106 0.96
33_H 50_E 1.105 0.96
200_L 268_M 1.102 0.96
359_S 362_E 1.099 0.96
240_R 243_E 1.098 0.96
170_Y 173_R 1.088 0.96
225_L 332_R 1.083 0.96
265_S 293_A 1.08 0.95
221_L 331_L 1.075 0.95
220_S 223_E 1.072 0.95
213_R 322_F 1.066 0.95
279_Y 322_F 1.064 0.95
291_I 297_V 1.051 0.94
275_L 331_L 1.039 0.94
204_S 208_R 1.034 0.94
303_C 306_A 1.034 0.94
212_D 216_E 1.032 0.94
273_L 334_A 1.029 0.94
199_L 218_L 1.027 0.94
173_R 265_S 1.022 0.93
298_L 330_V 1.021 0.93
243_E 247_E 1.02 0.93
111_K 285_I 1.02 0.93
304_G 307_H 1.014 0.93
351_Y 354_T 1.009 0.93
268_M 293_A 1.008 0.93
215_I 246_A 1.002 0.92
274_L 286_V 1.002 0.92
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
2iw1A10.99731000.102Contact Map0.748
2r60A10.9841000.109Contact Map0.728
1rzuA20.96521000.124Contact Map0.721
3c48A20.97861000.132Contact Map0.81
2qzsA10.96521000.132Contact Map0.736
3froA30.97331000.15Contact Map0.801
3s28A80.9841000.158Contact Map0.603
2jjmA120.96791000.166Contact Map0.787
3okpA10.95191000.18Contact Map0.774
2x0dA20.91711000.197Contact Map0.632
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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