GREMLIN.BAKERLAB.org
Powered by OPENSEQ.org
ARAF - L-arabinose-binding periplasmic protein
UniProt: P02924 Sequence
Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10057
Length: 329 (283)
Sequences: 15228
Seq/Len: 53.81

ARAF
Paralog alert: 0.90 [within 20: 0.53] - ratio of genomes with paralogs
Cluster includes: ALSB ARAF ASCG CRA CYTR DGAL EBGR GALR GALS GNTR IDNR LACI LSRB MALI PURR RBSB RBSR TORT TRER XYLF YCJW YPHF YTFQ
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
134_T 180_D 3.741 1.00
150_K 220_K 3.542 1.00
140_Q 252_I 2.9 1.00
83_G 290_L 2.863 1.00
256_G 276_L 2.702 1.00
175_T 179_M 2.617 1.00
239_T 249_I 2.517 1.00
150_K 250_I 2.46 1.00
142_Q 146_K 2.427 1.00
46_F 283_G 2.363 1.00
138_E 184_A 2.361 1.00
50_A 288_E 2.26 1.00
138_E 180_D 2.245 1.00
50_A 53_D 2.233 1.00
206_F 241_G 2.232 1.00
285_K 288_E 2.228 1.00
127_P 293_W 2.137 1.00
137_G 141_G 2.133 1.00
136_I 254_I 2.111 1.00
138_E 181_A 2.049 1.00
51_G 287_S 2.02 1.00
209_A 224_I 1.956 1.00
142_Q 181_A 1.927 1.00
50_A 284_Y 1.922 1.00
135_K 139_R 1.911 1.00
210_N 242_Q 1.91 1.00
145_Y 185_A 1.895 1.00
244_F 248_D 1.893 1.00
49_K 280_D 1.889 1.00
214_V 242_Q 1.888 1.00
205_A 234_G 1.886 1.00
144_L 223_L 1.883 1.00
138_E 142_Q 1.833 1.00
134_T 176_T 1.832 1.00
210_N 238_A 1.821 1.00
137_G 225_V 1.81 1.00
142_Q 185_A 1.774 1.00
206_F 238_A 1.764 1.00
292_N 298_V 1.763 1.00
245_K 248_D 1.735 1.00
141_G 178_S 1.732 1.00
141_G 145_Y 1.708 1.00
278_S 281_V 1.704 1.00
276_L 310_V 1.703 1.00
29_G 81_A 1.683 1.00
209_A 235_G 1.681 1.00
135_K 138_E 1.637 1.00
252_I 273_G 1.634 1.00
176_T 180_D 1.626 1.00
50_A 287_S 1.625 1.00
145_Y 181_A 1.62 1.00
111_V 286_S 1.591 1.00
281_V 284_Y 1.577 1.00
132_A 135_K 1.564 1.00
46_F 280_D 1.556 1.00
226_G 235_G 1.534 1.00
29_G 76_L 1.523 1.00
28_L 51_G 1.52 1.00
288_E 292_N 1.508 1.00
256_G 314_R 1.507 1.00
177_G 181_A 1.495 1.00
210_N 241_G 1.485 1.00
54_L 291_Y 1.478 1.00
238_A 242_Q 1.473 1.00
30_F 47_A 1.469 1.00
139_R 309_V 1.461 1.00
143_E 147_E 1.453 1.00
51_G 58_V 1.451 1.00
99_A 103_G 1.441 1.00
157_E 218_E 1.419 1.00
209_A 239_T 1.412 1.00
142_Q 184_A 1.403 0.99
141_G 177_G 1.398 0.99
281_V 285_K 1.395 0.99
141_G 181_A 1.391 0.99
137_G 177_G 1.389 0.99
238_A 241_G 1.389 0.99
173_R 176_T 1.371 0.99
160_V 227_M 1.368 0.99
143_E 317_F 1.365 0.99
26_L 56_F 1.364 0.99
239_T 244_F 1.361 0.99
179_M 183_K 1.355 0.99
143_E 146_K 1.354 0.99
236_V 251_G 1.35 0.99
50_A 54_L 1.345 0.99
61_I 76_L 1.339 0.99
147_E 317_F 1.329 0.99
240_E 267_Q 1.326 0.99
229_D 274_S 1.323 0.99
161_M 235_G 1.319 0.99
159_A 219_V 1.309 0.99
203_P 207_D 1.299 0.99
199_S 204_G 1.298 0.99
159_A 212_M 1.287 0.99
136_I 309_V 1.28 0.99
234_G 238_A 1.278 0.99
48_D 52_K 1.274 0.99
26_L 82_K 1.263 0.99
143_E 313_T 1.262 0.99
150_K 223_L 1.26 0.99
47_A 85_V 1.256 0.99
145_Y 187_F 1.249 0.99
271_F 315_D 1.249 0.99
178_S 182_L 1.237 0.98
30_F 58_V 1.232 0.98
207_D 211_S 1.218 0.98
206_F 210_N 1.213 0.98
134_T 138_E 1.212 0.98
74_D 100_K 1.212 0.98
181_A 184_A 1.211 0.98
253_G 274_S 1.21 0.98
216_H 219_V 1.202 0.98
206_F 237_R 1.2 0.98
85_V 286_S 1.195 0.98
278_S 307_T 1.194 0.98
229_D 253_G 1.191 0.98
157_E 220_K 1.19 0.98
47_A 287_S 1.181 0.98
61_I 72_A 1.181 0.98
139_R 142_Q 1.168 0.97
27_K 57_E 1.163 0.97
134_T 177_G 1.16 0.97
224_I 235_G 1.158 0.97
240_E 265_K 1.149 0.97
226_G 232_V 1.146 0.97
134_T 173_R 1.142 0.97
158_S 182_L 1.125 0.97
209_A 213_L 1.112 0.96
283_G 287_S 1.103 0.96
180_D 184_A 1.098 0.96
229_D 232_V 1.097 0.96
178_S 225_V 1.096 0.96
239_T 251_G 1.073 0.95
68_K 71_N 1.064 0.95
182_L 187_F 1.063 0.95
157_E 191_Q 1.061 0.95
47_A 283_G 1.058 0.95
198_K 231_T 1.054 0.95
285_K 289_M 1.05 0.94
140_Q 275_L 1.049 0.94
131_M 277_P 1.041 0.94
54_L 288_E 1.039 0.94
147_E 250_I 1.038 0.94
266_A 271_F 1.038 0.94
204_G 207_D 1.031 0.94
255_N 277_P 1.027 0.94
205_A 209_A 1.027 0.94
147_E 313_T 1.026 0.94
196_P 211_S 1.026 0.94
265_K 271_F 1.026 0.94
291_Y 295_A 1.025 0.93
284_Y 288_E 1.015 0.93
226_G 231_T 1.015 0.93
280_D 284_Y 1.013 0.93
250_I 317_F 1.009 0.93
140_Q 225_V 1.005 0.93
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
8abpA10.9241000.242Contact Map0.589
4kzkA10.94531000.25Contact Map0.623
4kvfA10.88151000.272Contact Map0.583
2driA10.81461000.282Contact Map0.721
2rgyA10.86631000.287Contact Map0.767
4irxA20.87841000.288Contact Map0.7
3dbiA30.90581000.289Contact Map0.727
2iksA20.87841000.291Contact Map0.707
3d02A10.85411000.291Contact Map0.571
3brqA20.87841000.294Contact Map0.799

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.

Page generated in 0.0339 seconds.