May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
YHBJ - UPF0042 nucleotide-binding protein YhbJ
UniProt: P0A894 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG12146
Length: 284 (282)
Sequences: 1028
Seq/Len: 3.65
YHBJ
Paralog alert: 0.00 [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
177_A 244_A 6.17 1.00
203_K 207_A 4.871 1.00
201_L 259_E 3.989 1.00
198_M 204_P 3.36 1.00
164_F 258_A 3.192 1.00
181_F 222_T 3.091 1.00
91_T 137_S 2.88 1.00
221_Q 224_S 2.723 1.00
190_H 197_P 2.545 1.00
142_H 191_W 2.373 1.00
2_V 81_Q 2.367 1.00
262_A 274_S 2.277 1.00
209_L 256_Y 2.254 1.00
89_R 120_S 2.215 1.00
9_R 86_D 2.181 1.00
226_L 261_L 2.147 1.00
210_D 256_Y 2.142 1.00
89_R 117_D 2.136 1.00
179_Y 233_L 2.133 1.00
180_V 244_A 2.106 1.00
173_I 180_V 2.085 1.00
93_I 113_E 2.037 1.00
227_E 264_Y 2.034 1.00
198_M 202_D 2.033 1.00
219_I 260_Q 2.004 1.00
164_F 265_F 2.001 1.00
221_Q 228_L 1.982 1.00
185_F 218_F 1.921 1.00
214_E 235_T 1.909 1.00
259_E 263_D 1.83 0.99
223_R 264_Y 1.826 0.99
260_Q 263_D 1.763 0.99
219_I 257_I 1.746 0.99
88_D 91_T 1.721 0.99
132_L 151_R 1.69 0.99
88_D 135_D 1.685 0.99
206_A 256_Y 1.649 0.99
245_I 261_L 1.641 0.99
162_M 230_L 1.627 0.98
219_I 264_Y 1.591 0.98
140_S 143_E 1.585 0.98
199_T 251_K 1.58 0.98
86_D 127_R 1.575 0.98
4_M 21_L 1.552 0.98
72_S 129_R 1.536 0.98
260_Q 264_Y 1.525 0.97
227_E 268_R 1.458 0.96
29_V 40_L 1.455 0.96
179_Y 241_L 1.427 0.96
168_G 278_T 1.426 0.96
203_K 206_A 1.407 0.95
18_L 54_S 1.405 0.95
141_V 191_W 1.404 0.95
34_V 63_S 1.404 0.95
24_M 148_L 1.402 0.95
6_V 21_L 1.373 0.94
233_L 278_T 1.354 0.94
143_E 146_E 1.344 0.94
9_R 120_S 1.337 0.93
6_V 83_L 1.336 0.93
127_R 133_I 1.335 0.93
192_D 196_R 1.327 0.93
71_M 82_L 1.317 0.93
168_G 171_H 1.311 0.92
39_D 42_R 1.31 0.92
215_V 257_I 1.307 0.92
111_S 114_S 1.299 0.92
190_H 199_T 1.291 0.92
37_L 55_I 1.283 0.91
29_V 32_L 1.279 0.91
183_V 245_I 1.275 0.91
259_E 274_S 1.274 0.91
218_F 222_T 1.264 0.91
177_A 180_V 1.247 0.90
217_N 221_Q 1.245 0.90
140_S 191_W 1.242 0.89
3_L 41_A 1.236 0.89
179_Y 229_W 1.23 0.89
258_A 274_S 1.229 0.89
192_D 208_F 1.222 0.88
37_L 53_V 1.211 0.88
209_L 238_R 1.201 0.87
227_E 265_F 1.193 0.87
18_L 28_C 1.187 0.86
162_M 243_V 1.162 0.85
36_L 40_L 1.154 0.84
222_T 261_L 1.151 0.84
17_A 148_L 1.144 0.84
121_D 124_E 1.128 0.82
118_K 122_L 1.127 0.82
111_S 165_E 1.122 0.82
231_P 241_L 1.097 0.80
34_V 64_P 1.095 0.80
165_E 244_A 1.089 0.79
147_M 150_T 1.089 0.79
223_R 227_E 1.088 0.79
71_M 80_P 1.086 0.79
134_V 139_M 1.083 0.79
112_L 115_A 1.064 0.77
206_A 210_D 1.055 0.76
256_Y 259_E 1.052 0.76
92_L 116_I 1.052 0.76
17_A 258_A 1.051 0.76
88_D 138_E 1.05 0.76
36_L 214_E 1.05 0.76
201_L 241_L 1.043 0.75
210_D 260_Q 1.042 0.75
190_H 215_V 1.039 0.75
55_I 226_L 1.033 0.74
84_F 120_S 1.033 0.74
165_E 242_T 1.03 0.74
86_D 120_S 1.028 0.73
84_F 126_L 1.026 0.73
220_Y 264_Y 1.02 0.73
132_L 152_L 1.018 0.72
6_V 54_S 1.015 0.72
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
3nwjA20.563499.70.856Contact Map0.551
3lw7A20.50799.60.867Contact Map0.515
4e22A10.559999.60.868Contact Map0.677
2if2A30.559999.50.87Contact Map0.54
1knqA20.503599.50.873Contact Map0.458
2gksA20.535299.50.876Contact Map0.521
1m8pA30.528299.50.876Contact Map0.61
2grjA80.49399.40.877Contact Map0.605
3kb2A20.552899.40.877Contact Map0.758
3vaaA30.535299.40.878Contact Map0.5
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 0.017 seconds.