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OPENSEQ.org
YJIE - HTH-type transcriptional regulator YjiE
UniProt: P39376 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG12566
Length: 303 (288)
Sequences: 37043
Seq/Len: 128.62
YJIE
Paralog alert: 0.88 [within 20: 0.50] - ratio of genomes with paralogs
Cluster includes: AAER ABGR ALLS CBL CYNR CYSB DMLR DSDC GCVA HCAR HDFR ICIA ILVY LEUO LRHA LYSR METR NAC NHAR OXYR PERR TDCA TTDR XAPR YAFC YAHB YBDO YBEF YBHD YCAN YCJZ YDCI YDHB YEEY YEIE YFER YFIE YGFI YHAJ YHJC YIAU YIDZ YJIE YNEJ YNFL
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
80_H 84_Q 3.807 1.00
25_C 34_S 3.443 1.00
238_A 245_A 2.548 1.00
167_I 296_R 2.467 1.00
106_A 148_S 2.439 1.00
30_Q 33_V 2.438 1.00
173_Q 249_E 2.342 1.00
77_Q 91_E 2.302 1.00
24_K 79_R 2.274 1.00
21_T 34_S 2.249 1.00
102_K 128_T 2.207 1.00
104_K 130_A 2.2 1.00
81_L 85_L 2.166 1.00
102_K 130_A 2.164 1.00
168_R 171_E 2.154 1.00
77_Q 84_Q 2.096 1.00
235_K 255_E 2.077 1.00
171_E 274_Q 2.059 1.00
23_E 67_L 2.054 1.00
189_N 192_Q 2.045 1.00
20_L 75_H 2.035 1.00
18_D 45_R 2.033 1.00
75_H 79_R 1.988 1.00
28_F 46_I 1.987 1.00
21_T 25_C 1.977 1.00
55_V 70_Q 1.974 1.00
20_L 24_K 1.913 1.00
20_L 79_R 1.895 1.00
198_L 243_G 1.857 1.00
59_N 66_Q 1.852 1.00
239_L 255_E 1.849 1.00
168_R 274_Q 1.846 1.00
21_T 24_K 1.842 1.00
18_D 42_F 1.838 1.00
74_F 88_N 1.834 1.00
175_F 249_E 1.829 1.00
123_M 127_F 1.821 1.00
239_L 260_K 1.784 1.00
122_Q 294_E 1.767 1.00
23_E 75_H 1.762 1.00
196_P 225_F 1.76 1.00
141_D 145_E 1.746 1.00
69_E 72_K 1.733 1.00
73_I 91_E 1.716 1.00
178_C 264_L 1.703 1.00
19_F 75_H 1.689 1.00
24_K 34_S 1.673 1.00
38_S 41_A 1.666 1.00
20_L 78_I 1.666 1.00
25_C 30_Q 1.626 1.00
18_D 37_V 1.622 1.00
29_S 39_Q 1.617 1.00
139_A 151_I 1.615 1.00
27_N 30_Q 1.614 1.00
122_Q 298_L 1.605 1.00
123_M 291_F 1.594 1.00
175_F 263_V 1.592 1.00
20_L 82_L 1.58 1.00
182_E 195_F 1.525 1.00
77_Q 87_S 1.52 1.00
142_K 147_Q 1.511 1.00
171_E 272_P 1.505 1.00
198_L 234_L 1.48 1.00
81_L 88_N 1.478 1.00
21_T 35_R 1.477 1.00
113_L 232_E 1.47 1.00
56_E 59_N 1.449 1.00
72_K 76_S 1.446 1.00
207_G 211_N 1.425 1.00
195_F 244_I 1.419 1.00
150_C 288_A 1.405 0.99
74_F 89_L 1.4 0.99
15_W 48_A 1.393 0.99
253_Q 257_R 1.388 0.99
47_R 51_Q 1.384 0.99
15_W 45_R 1.383 0.99
143_L 151_I 1.37 0.99
13_T 85_L 1.37 0.99
98_Y 126_L 1.368 0.99
15_W 52_A 1.359 0.99
166_H 276_Y 1.356 0.99
77_Q 80_H 1.349 0.99
134_I 138_E 1.339 0.99
255_E 260_K 1.338 0.99
234_L 245_A 1.312 0.99
178_C 244_I 1.309 0.99
12_E 15_W 1.305 0.99
290_R 293_R 1.296 0.99
121_S 125_P 1.293 0.99
122_Q 125_P 1.289 0.99
52_A 89_L 1.283 0.99
142_K 148_S 1.269 0.99
44_R 47_R 1.266 0.99
292_W 296_R 1.258 0.99
284_M 288_A 1.254 0.99
228_S 234_L 1.25 0.99
249_E 253_Q 1.246 0.98
19_F 23_E 1.244 0.98
104_K 132_E 1.234 0.98
124_P 196_P 1.233 0.98
124_P 225_F 1.23 0.98
76_S 80_H 1.23 0.98
77_Q 88_N 1.23 0.98
22_L 46_I 1.222 0.98
73_I 76_S 1.22 0.98
37_V 41_A 1.211 0.98
236_Q 239_L 1.208 0.98
123_M 294_E 1.202 0.98
61_Q 66_Q 1.201 0.98
185_E 262_V 1.198 0.98
19_F 58_F 1.197 0.98
100_Q 126_L 1.184 0.98
19_F 57_L 1.177 0.98
183_H 196_P 1.174 0.98
249_E 263_V 1.172 0.98
84_Q 87_S 1.172 0.98
28_F 65_L 1.166 0.97
23_E 58_F 1.162 0.97
277_A 292_W 1.161 0.97
17_Y 86_E 1.16 0.97
22_L 31_A 1.153 0.97
43_S 47_R 1.152 0.97
67_L 71_G 1.151 0.97
103_I 291_F 1.141 0.97
144_R 163_P 1.132 0.97
112_S 133_A 1.126 0.97
21_T 31_A 1.125 0.97
179_A 241_G 1.119 0.96
254_Q 258_S 1.119 0.96
121_S 240_D 1.109 0.96
235_K 239_L 1.107 0.96
190_L 193_P 1.106 0.96
172_S 250_Y 1.099 0.96
45_R 48_A 1.098 0.96
44_R 48_A 1.095 0.96
236_Q 240_D 1.094 0.96
289_E 293_R 1.093 0.96
293_R 296_R 1.09 0.96
177_V 252_I 1.086 0.96
73_I 77_Q 1.079 0.95
176_P 244_I 1.078 0.95
37_V 42_F 1.068 0.95
81_L 84_Q 1.066 0.95
180_S 260_K 1.061 0.95
16_L 78_I 1.06 0.95
168_R 276_Y 1.059 0.95
130_A 227_V 1.057 0.95
58_F 65_L 1.055 0.95
214_L 220_L 1.051 0.94
14_K 17_Y 1.05 0.94
80_H 87_S 1.048 0.94
106_A 153_S 1.04 0.94
86_E 90_A 1.031 0.94
74_F 78_I 1.028 0.94
118_S 240_D 1.021 0.93
138_E 141_D 1.018 0.93
180_S 262_V 1.018 0.93
105_I 150_C 1.01 0.93
23_E 71_G 1.006 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
3fzvA40.96371000.144Contact Map0.714
2esnA40.97691000.15Contact Map0.749
3fxqA20.9671000.151Contact Map0.766
1uthA10.99011000.154Contact Map0.712
2h98A20.94721000.158Contact Map0.721
1ixcA20.94391000.163Contact Map0.759
2h9bA20.94721000.166Contact Map0.753
1al3A10.95711000.171Contact Map0.752
3hhgA80.95051000.182Contact Map0.918
3szpA20.93731000.188Contact Map0.76
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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