May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
YHAJ - Uncharacterized HTH-type transcriptional regulator YhaJ
UniProt: P67660 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG12749
Length: 298 (289)
Sequences: 37061
Seq/Len: 128.24
YHAJ
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
76_V 80_A 3.732 1.00
21_R 30_E 3.396 1.00
235_L 242_A 2.506 1.00
102_V 146_A 2.427 1.00
26_A 29_D 2.396 1.00
73_R 87_D 2.365 1.00
165_R 292_P 2.362 1.00
171_M 246_Y 2.282 1.00
20_R 75_R 2.238 1.00
17_A 30_E 2.199 1.00
190_S 193_T 2.196 1.00
98_H 126_Q 2.175 1.00
100_T 128_A 2.16 1.00
98_H 128_A 2.135 1.00
77_L 81_A 2.129 1.00
180_H 197_Y 2.108 1.00
19_D 63_F 2.064 1.00
166_K 169_T 2.04 1.00
73_R 80_A 2.034 1.00
232_R 252_D 2.019 1.00
16_D 71_L 2.007 1.00
14_V 41_T 2.002 1.00
24_F 42_M 1.969 1.00
51_V 66_V 1.953 1.00
71_L 75_R 1.946 1.00
17_A 21_R 1.9 1.00
16_D 20_R 1.866 1.00
16_D 75_R 1.862 1.00
17_A 20_R 1.848 1.00
14_V 38_L 1.819 1.00
55_D 62_K 1.819 1.00
119_L 125_T 1.816 1.00
70_L 84_L 1.796 1.00
176_A 261_V 1.791 1.00
173_V 246_Y 1.785 1.00
236_L 252_D 1.784 1.00
118_K 294_L 1.761 1.00
200_I 240_G 1.756 1.00
19_D 71_L 1.732 1.00
118_K 290_E 1.728 1.00
236_L 257_R 1.718 1.00
65_N 68_R 1.705 1.00
69_M 87_D 1.689 1.00
16_D 74_G 1.682 1.00
15_M 71_L 1.672 1.00
20_R 30_E 1.67 1.00
137_A 149_V 1.647 1.00
25_A 35_P 1.622 1.00
34_V 37_A 1.621 1.00
198_R 222_R 1.61 1.00
14_V 33_R 1.602 1.00
21_R 26_A 1.594 1.00
23_S 26_A 1.588 1.00
173_V 260_V 1.587 1.00
16_D 78_L 1.573 1.00
94_G 124_N 1.56 1.00
139_E 143_Q 1.546 1.00
119_L 287_C 1.532 1.00
140_R 145_R 1.505 1.00
164_S 272_I 1.498 1.00
73_R 83_K 1.482 1.00
77_L 84_L 1.468 1.00
17_A 31_L 1.459 1.00
52_V 55_D 1.45 1.00
109_T 229_E 1.448 1.00
11_A 41_T 1.432 1.00
200_I 231_K 1.419 1.00
11_A 48_E 1.415 1.00
11_A 44_K 1.415 1.00
9_L 81_A 1.403 0.99
118_K 121_A 1.399 0.99
197_Y 241_V 1.39 0.99
68_R 72_E 1.374 0.99
8_T 11_A 1.369 0.99
43_Q 47_E 1.359 0.99
70_L 85_T 1.358 0.99
176_A 241_V 1.347 0.99
148_I 284_K 1.338 0.99
250_E 254_A 1.332 0.99
96_E 124_N 1.325 0.99
73_R 76_V 1.322 0.99
163_N 277_R 1.316 0.99
163_N 275_W 1.314 0.99
141_L 149_V 1.307 0.99
117_D 120_A 1.301 0.99
231_K 242_A 1.297 0.99
181_P 197_Y 1.264 0.99
286_W 289_R 1.261 0.99
132_E 136_G 1.257 0.99
40_Y 43_Q 1.256 0.99
252_D 257_R 1.253 0.99
185_E 193_T 1.249 0.99
225_V 231_K 1.237 0.98
165_R 275_W 1.232 0.98
15_M 19_D 1.23 0.98
140_R 146_A 1.229 0.98
148_I 273_M 1.229 0.98
169_T 269_I 1.227 0.98
187_E 259_R 1.224 0.98
48_E 85_T 1.218 0.98
233_Q 236_L 1.217 0.98
260_V 263_P 1.212 0.98
288_L 292_P 1.206 0.98
72_E 76_V 1.203 0.98
18_I 42_M 1.2 0.98
57_S 62_K 1.2 0.98
80_A 83_K 1.198 0.98
100_T 130_I 1.198 0.98
73_R 84_L 1.196 0.98
273_M 288_L 1.194 0.98
142_E 161_E 1.193 0.98
33_R 37_A 1.189 0.98
15_M 54_F 1.184 0.98
18_I 27_A 1.179 0.98
69_M 72_E 1.177 0.98
15_M 53_L 1.176 0.98
121_A 290_E 1.174 0.98
39_S 43_Q 1.167 0.97
151_A 274_A 1.165 0.97
13_R 82_D 1.164 0.97
108_P 131_T 1.162 0.97
246_Y 250_E 1.159 0.97
19_D 54_F 1.154 0.97
63_F 67_G 1.147 0.97
99_L 287_C 1.136 0.97
246_Y 260_V 1.131 0.97
189_L 193_T 1.123 0.97
17_A 27_A 1.121 0.97
24_F 61_T 1.119 0.96
170_L 247_P 1.115 0.96
119_L 122_K 1.104 0.96
176_A 180_H 1.102 0.96
41_T 44_K 1.102 0.96
178_P 259_R 1.093 0.96
12_L 74_G 1.092 0.96
10_E 13_R 1.082 0.96
177_A 238_G 1.082 0.96
153_D 272_I 1.082 0.96
166_K 272_I 1.082 0.96
285_S 289_R 1.082 0.96
69_M 73_R 1.081 0.95
174_Y 241_V 1.081 0.95
233_Q 237_A 1.08 0.95
117_D 237_A 1.077 0.95
128_A 224_T 1.074 0.95
232_R 236_L 1.074 0.95
175_V 249_V 1.071 0.95
164_S 274_A 1.068 0.95
40_Y 44_K 1.066 0.95
169_T 270_D 1.059 0.95
251_K 255_E 1.054 0.95
275_W 288_L 1.053 0.95
76_V 83_K 1.052 0.95
82_D 86_T 1.051 0.94
77_L 80_A 1.049 0.94
119_L 290_E 1.045 0.94
178_P 257_R 1.045 0.94
54_F 61_T 1.044 0.94
33_R 38_L 1.035 0.94
19_D 67_G 1.025 0.93
70_L 74_G 1.022 0.93
176_A 182_I 1.017 0.93
132_E 140_R 1.012 0.93
289_R 292_P 1.003 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
2esnA40.98661000.098Contact Map0.758
3fzvA40.97651000.103Contact Map0.722
1uthA10.98661000.104Contact Map0.746
3fxqA20.97321000.111Contact Map0.771
2h98A20.96311000.119Contact Map0.756
1ixcA20.95971000.121Contact Map0.749
1al3A10.96981000.121Contact Map0.753
2h9bA20.96311000.128Contact Map0.764
3hhgA80.96641000.133Contact Map0.921
3szpA20.9531000.134Contact Map0.764
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 0.0781 seconds.