May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
YCHF - Ribosome-binding ATPase YchF
UniProt: P0ABU2 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG11404
Length: 363 (363)
Sequences: 2045
Seq/Len: 5.63
YCHF
Paralog alert: 0.07 [within 20: 0.00] - 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
118_K 123_D 4.432 1.00
351_V 357_M 3.919 1.00
53_Q 56_E 3.779 1.00
303_Q 313_E 3.33 1.00
60_P 290_V 3.018 1.00
171_Q 181_L 2.974 1.00
148_Q 166_E 2.85 1.00
53_Q 328_I 2.804 1.00
55_A 63_T 2.727 1.00
108_E 218_Y 2.639 1.00
344_A 360_L 2.56 1.00
144_I 162_L 2.559 1.00
122_A 225_I 2.503 1.00
53_Q 324_F 2.493 1.00
116_S 127_V 2.485 1.00
170_P 174_N 2.463 1.00
264_P 267_N 2.417 1.00
332_G 335_G 2.413 1.00
296_P 299_A 2.304 1.00
209_N 212_G 2.299 1.00
254_E 258_E 2.298 1.00
169_L 173_E 2.286 1.00
295_I 299_A 2.266 1.00
224_E 228_K 2.255 1.00
61_Q 288_K 2.22 1.00
120_N 221_Q 2.218 1.00
324_F 328_I 2.153 1.00
321_T 357_M 2.152 1.00
320_Q 360_L 2.098 1.00
125_I 222_V 2.075 1.00
325_E 329_T 2.048 1.00
300_T 350_I 2.031 1.00
224_E 227_A 2.023 1.00
167_K 187_E 2.014 1.00
102_H 202_T 1.983 1.00
326_D 329_T 1.961 1.00
137_L 169_L 1.929 1.00
5_C 273_G 1.924 1.00
330_Y 339_A 1.92 1.00
337_K 342_M 1.916 1.00
335_G 339_A 1.905 1.00
321_T 351_V 1.904 1.00
52_D 56_E 1.886 1.00
295_I 304_A 1.864 1.00
322_I 333_E 1.859 1.00
218_Y 221_Q 1.842 1.00
232_V 275_K 1.829 1.00
285_A 290_V 1.78 1.00
278_N 297_V 1.778 1.00
280_Q 297_V 1.775 1.00
253_D 257_Q 1.766 1.00
299_A 303_Q 1.747 1.00
315_G 362_N 1.729 1.00
18_L 238_A 1.725 1.00
61_Q 287_V 1.717 1.00
275_K 297_V 1.709 1.00
120_N 123_D 1.702 1.00
58_V 290_V 1.691 1.00
220_D 223_R 1.672 1.00
106_C 222_V 1.665 1.00
168_C 178_L 1.655 1.00
322_I 342_M 1.644 1.00
101_G 205_I 1.638 0.99
314_K 363_V 1.631 0.99
28_E 35_C 1.629 0.99
104_V 125_I 1.593 0.99
315_G 361_F 1.588 0.99
178_L 199_L 1.584 0.99
221_Q 224_E 1.571 0.99
163_A 166_E 1.555 0.99
318_R 360_L 1.554 0.99
178_L 181_L 1.543 0.99
242_A 246_E 1.525 0.99
333_E 342_M 1.519 0.99
58_V 285_A 1.514 0.99
140_C 165_L 1.506 0.99
335_G 338_E 1.501 0.99
52_D 63_T 1.497 0.99
171_Q 180_A 1.491 0.99
178_L 196_F 1.49 0.99
203_M 276_L 1.49 0.99
220_D 224_E 1.477 0.99
56_E 59_K 1.476 0.99
176_G 228_K 1.474 0.99
321_T 344_A 1.462 0.99
329_T 341_K 1.459 0.99
78_K 116_S 1.451 0.98
331_K 335_G 1.445 0.98
334_Q 337_K 1.428 0.98
219_L 223_R 1.426 0.98
322_I 336_A 1.418 0.98
263_E 271_R 1.388 0.98
24_K 252_R 1.386 0.98
184_S 187_E 1.374 0.98
226_A 233_V 1.366 0.98
49_P 262_E 1.359 0.97
327_F 356_V 1.346 0.97
154_G 159_K 1.34 0.97
164_V 167_K 1.335 0.97
297_V 352_K 1.334 0.97
330_Y 341_K 1.333 0.97
205_I 269_V 1.326 0.97
326_D 341_K 1.324 0.97
147_V 162_L 1.318 0.97
116_S 123_D 1.308 0.97
58_V 327_F 1.305 0.96
24_K 249_D 1.287 0.96
130_T 134_L 1.281 0.96
320_Q 358_N 1.28 0.96
333_E 337_K 1.277 0.96
257_Q 262_E 1.266 0.96
217_P 220_D 1.262 0.96
280_Q 299_A 1.248 0.95
318_R 344_A 1.248 0.95
122_A 221_Q 1.236 0.95
141_E 169_L 1.228 0.95
327_F 332_G 1.205 0.94
162_L 166_E 1.203 0.94
301_A 316_F 1.202 0.94
3_F 273_G 1.196 0.94
282_Y 288_K 1.195 0.93
272_A 275_K 1.189 0.93
280_Q 295_I 1.182 0.93
219_L 235_P 1.181 0.93
145_H 148_Q 1.18 0.93
295_I 307_K 1.171 0.93
78_K 127_V 1.162 0.92
144_I 166_E 1.152 0.92
54_L 356_V 1.15 0.92
59_K 287_V 1.148 0.92
92_T 96_E 1.146 0.91
188_K 199_L 1.138 0.91
51_L 63_T 1.136 0.91
304_A 351_V 1.135 0.91
336_A 342_M 1.135 0.91
159_K 163_A 1.13 0.91
64_L 291_R 1.122 0.90
170_P 173_E 1.122 0.90
166_E 169_L 1.12 0.90
244_I 255_F 1.119 0.90
323_S 343_R 1.116 0.90
183_L 187_E 1.102 0.89
147_V 165_L 1.099 0.89
213_F 219_L 1.092 0.89
60_P 287_V 1.087 0.88
140_C 196_F 1.073 0.87
242_A 245_A 1.072 0.87
185_A 188_K 1.07 0.87
315_G 363_V 1.063 0.87
109_N 239_A 1.063 0.87
330_Y 335_G 1.062 0.87
2_G 273_G 1.062 0.87
306_G 313_E 1.058 0.86
53_Q 331_K 1.057 0.86
223_R 227_A 1.053 0.86
323_S 352_K 1.051 0.86
236_V 269_V 1.049 0.86
255_F 258_E 1.049 0.86
61_Q 64_L 1.046 0.86
255_F 259_L 1.046 0.86
271_R 275_K 1.044 0.85
244_I 261_L 1.04 0.85
17_T 238_A 1.036 0.85
68_M 97_T 1.033 0.85
325_E 328_I 1.031 0.85
53_Q 57_I 1.031 0.85
240_V 259_L 1.028 0.84
20_N 29_A 1.026 0.84
5_C 101_G 1.009 0.83
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
1jalA211000.219Contact Map0.737
2dbyA10.99451000.24Contact Map0.685
2ohfA10.99721000.28Contact Map0.694
1ni3A10.99721000.286Contact Map0.7
1wxqA10.92561000.39Contact Map0.448
4a9aA20.79611000.616Contact Map0.553
1lnzA20.509699.90.807Contact Map0.641
1udxA10.69799.90.809Contact Map0.48
2ekiA10.228799.90.84Contact Map0.525
2qtfA10.490499.70.864Contact Map0.727
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 0.3251 seconds.