May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
RBSB - D-ribose-binding periplasmic protein
UniProt: P02925 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10815
Length: 296 (271)
Sequences: 14794
Seq/Len: 54.59
RBSB
Paralog alert: 0.91 [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
131_V 172_Q 3.751 1.00
148_G 209_Q 3.406 1.00
137_A 237_V 3.037 1.00
85_I 273_A 2.755 1.00
241_G 259_A 2.73 1.00
167_G 171_Q 2.609 1.00
148_G 235_M 2.49 1.00
226_L 234_V 2.477 1.00
135_K 176_A 2.343 1.00
139_D 143_K 2.296 1.00
47_G 266_G 2.273 1.00
135_K 172_Q 2.246 1.00
268_K 271_E 2.218 1.00
51_E 54_K 2.215 1.00
51_E 271_E 2.206 1.00
195_L 228_T 2.176 1.00
134_G 138_G 2.102 1.00
133_G 239_F 2.089 1.00
142_A 177_H 2.067 1.00
135_K 173_A 2.049 1.00
139_D 173_A 2.002 1.00
52_A 270_V 1.989 1.00
132_L 136_I 1.982 1.00
199_Q 229_A 1.945 1.00
51_E 267_A 1.908 1.00
141_I 210_A 1.897 1.00
203_T 229_A 1.889 1.00
50_K 263_D 1.85 1.00
199_Q 225_A 1.848 1.00
198_M 211_V 1.846 1.00
131_V 168_E 1.835 1.00
135_K 139_D 1.813 1.00
134_G 212_F 1.807 1.00
138_G 170_F 1.78 1.00
259_A 291_K 1.779 1.00
139_D 177_H 1.77 1.00
275_K 280_E 1.757 1.00
194_G 221_G 1.735 1.00
140_Y 144_K 1.729 1.00
198_M 222_A 1.694 1.00
195_L 225_A 1.685 1.00
261_L 264_Q 1.678 1.00
168_E 172_Q 1.659 1.00
138_G 142_A 1.656 1.00
132_L 135_K 1.655 1.00
142_A 173_A 1.626 1.00
124_S 276_V 1.61 1.00
129_D 132_L 1.604 1.00
113_L 269_G 1.603 1.00
264_Q 267_A 1.598 1.00
237_V 256_A 1.596 1.00
30_A 83_T 1.59 1.00
154_L 222_A 1.583 1.00
213_A 222_A 1.581 1.00
29_I 52_A 1.565 1.00
152_I 208_V 1.537 1.00
51_E 270_V 1.529 1.00
153_E 214_Q 1.528 1.00
150_K 207_D 1.508 1.00
225_A 229_A 1.506 1.00
47_G 263_D 1.5 1.00
169_G 173_A 1.495 1.00
136_I 290_L 1.478 1.00
55_L 274_D 1.459 1.00
227_Q 251_D 1.456 1.00
198_M 226_L 1.455 1.00
264_Q 268_K 1.451 1.00
271_E 275_K 1.434 1.00
199_Q 228_T 1.433 1.00
139_D 176_A 1.433 1.00
225_A 228_T 1.425 1.00
223_L 236_V 1.413 1.00
31_L 48_A 1.404 0.99
101_K 105_Q 1.399 0.99
134_G 169_G 1.387 0.99
165_E 168_E 1.376 0.99
30_A 78_L 1.376 0.99
51_E 55_L 1.357 0.99
138_G 169_G 1.347 0.99
216_D 257_T 1.34 0.99
140_Y 294_V 1.332 0.99
274_D 278_K 1.329 0.99
148_G 210_A 1.327 0.99
192_I 196_N 1.319 0.99
48_A 87_L 1.316 0.99
140_Y 143_K 1.311 0.99
138_G 173_A 1.304 0.99
226_L 231_K 1.293 0.99
52_A 59_L 1.29 0.99
31_L 59_L 1.286 0.99
173_A 176_A 1.265 0.99
133_G 290_L 1.265 0.99
152_I 201_L 1.264 0.99
142_A 179_F 1.264 0.99
171_Q 175_A 1.259 0.99
49_Q 53_D 1.256 0.99
221_G 225_A 1.25 0.99
62_L 78_L 1.231 0.98
170_F 174_V 1.218 0.98
188_D 193_K 1.214 0.98
150_K 209_Q 1.213 0.98
227_Q 253_K 1.208 0.98
136_I 139_D 1.207 0.98
151_V 174_V 1.202 0.98
195_L 199_Q 1.201 0.98
62_L 74_N 1.2 0.98
87_L 269_G 1.197 0.98
238_G 257_T 1.197 0.98
205_H 208_V 1.195 0.98
195_L 224_R 1.193 0.98
131_V 135_K 1.176 0.98
213_A 219_A 1.175 0.98
266_G 270_V 1.163 0.97
211_V 222_A 1.162 0.97
48_A 270_V 1.16 0.97
150_K 180_N 1.152 0.97
144_K 235_M 1.139 0.97
196_N 200_N 1.137 0.97
261_L 288_V 1.133 0.97
140_Y 256_A 1.131 0.97
131_V 169_G 1.13 0.97
123_V 276_V 1.128 0.97
216_D 238_G 1.124 0.97
144_K 294_V 1.117 0.96
76_Q 102_M 1.11 0.96
198_M 202_L 1.103 0.96
27_D 57_Y 1.096 0.96
131_V 165_E 1.087 0.96
226_L 236_V 1.085 0.96
223_L 250_N 1.085 0.96
151_V 210_A 1.083 0.96
55_L 271_E 1.08 0.95
216_D 219_A 1.076 0.95
70_K 73_A 1.075 0.95
149_A 209_Q 1.074 0.95
153_E 167_G 1.07 0.95
27_D 84_K 1.057 0.95
143_K 177_H 1.056 0.95
267_A 271_E 1.052 0.95
268_K 272_T 1.049 0.94
185_Q 200_N 1.045 0.94
137_A 212_F 1.045 0.94
28_T 58_N 1.044 0.94
174_V 179_F 1.044 0.94
137_A 258_I 1.043 0.94
194_G 198_M 1.037 0.94
48_A 266_G 1.034 0.94
263_D 267_A 1.033 0.94
172_Q 176_A 1.031 0.94
213_A 218_M 1.022 0.93
291_K 294_V 1.012 0.93
268_K 286_Y 1.007 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
2driA10.91551000.175Contact Map0.717
2rgyA10.91221000.2Contact Map0.737
3dbiA30.97641000.211Contact Map0.72
2iksA20.94261000.215Contact Map0.726
2hsgA10.9731000.217Contact Map0.758
3o74A20.89531000.219Contact Map0.679
4kzkA10.97641000.222Contact Map0.595
3d8uA20.89531000.222Contact Map0.773
3huuA40.93241000.222Contact Map0.804
3brqA20.94261000.225Contact Map0.788
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 0.0945 seconds.