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OPENSEQ.org
YNFL - Uncharacterized HTH-type transcriptional regulator YnfL
UniProt: P77559 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13850
Length: 297 (290)
Sequences: 37663
Seq/Len: 129.87
YNFL
Paralog alert: 0.87 [within 20: 0.49] - 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
72_Q 76_M 3.741 1.00
17_E 26_R 3.425 1.00
236_V 243_S 2.51 1.00
98_G 144_L 2.458 1.00
22_R 25_A 2.407 1.00
69_D 83_R 2.352 1.00
167_P 247_A 2.304 1.00
16_E 71_R 2.274 1.00
206_Y 210_L 2.23 1.00
185_T 188_E 2.223 1.00
96_R 126_Q 2.188 1.00
13_A 26_R 2.185 1.00
94_E 124_H 2.162 1.00
73_I 77_V 2.148 1.00
94_E 126_Q 2.11 1.00
162_V 165_H 2.101 1.00
15_A 59_L 2.087 1.00
165_H 270_E 2.066 1.00
176_H 192_E 2.058 1.00
69_D 76_M 2.046 1.00
20_F 38_I 2.038 1.00
12_V 67_L 2.013 1.00
67_L 71_R 1.969 1.00
47_A 62_A 1.967 1.00
10_Y 37_Q 1.961 1.00
13_A 17_E 1.906 1.00
195_V 241_G 1.875 1.00
162_V 270_E 1.87 1.00
66_F 80_A 1.861 1.00
10_Y 34_L 1.859 1.00
13_A 16_E 1.856 1.00
12_V 16_E 1.842 1.00
51_A 58_L 1.841 1.00
116_F 123_V 1.839 1.00
12_V 71_R 1.836 1.00
61_A 64_K 1.743 1.00
15_A 67_L 1.736 1.00
169_M 247_A 1.727 1.00
11_F 67_L 1.72 1.00
16_E 26_R 1.706 1.00
161_A 293_L 1.693 1.00
116_F 288_F 1.688 1.00
12_V 70_S 1.67 1.00
65_Q 83_R 1.67 1.00
135_Q 147_G 1.659 1.00
21_G 31_Q 1.654 1.00
172_I 260_V 1.648 1.00
30_S 33_P 1.634 1.00
115_L 291_H 1.618 1.00
10_Y 29_I 1.616 1.00
12_V 74_L 1.599 1.00
90_G 122_D 1.589 1.00
19_H 22_R 1.587 1.00
17_E 22_R 1.583 1.00
137_A 141_E 1.56 1.00
165_H 268_V 1.524 1.00
160_H 272_W 1.518 1.00
193_P 223_T 1.513 1.00
181_N 188_E 1.51 1.00
254_L 257_M 1.506 1.00
69_D 79_D 1.5 1.00
195_V 232_I 1.491 1.00
138_P 143_T 1.49 1.00
73_I 80_A 1.483 1.00
48_R 51_A 1.465 1.00
7_H 40_A 1.463 1.00
13_A 27_L 1.445 1.00
7_H 37_Q 1.439 1.00
146_M 285_A 1.433 1.00
237_S 253_Q 1.419 1.00
64_K 68_A 1.414 1.00
5_L 77_V 1.414 1.00
7_H 44_Q 1.399 0.99
177_P 192_E 1.396 0.99
192_E 242_V 1.388 0.99
66_F 81_A 1.386 0.99
115_L 119_D 1.372 0.99
159_E 275_W 1.371 0.99
92_A 122_D 1.363 0.99
115_L 118_R 1.36 0.99
233_I 253_Q 1.35 0.99
273_L 289_R 1.348 0.99
4_E 7_H 1.34 0.99
39_Q 43_Q 1.334 0.99
130_M 134_E 1.325 0.99
281_Q 285_A 1.315 0.99
232_I 243_S 1.314 0.99
69_D 72_Q 1.3 0.99
14_V 38_I 1.282 0.99
114_S 118_R 1.275 0.99
226_V 232_I 1.271 0.99
139_L 147_G 1.264 0.99
161_A 275_W 1.258 0.99
36_Q 39_Q 1.252 0.99
95_L 288_F 1.251 0.99
44_Q 81_A 1.248 0.99
105_F 230_M 1.246 0.98
174_H 256_E 1.242 0.98
11_F 15_A 1.241 0.98
172_I 242_V 1.239 0.98
146_M 273_L 1.225 0.98
159_E 277_K 1.223 0.98
138_P 144_L 1.219 0.98
68_A 72_Q 1.218 0.98
117_R 193_P 1.21 0.98
69_D 80_A 1.21 0.98
11_F 49_L 1.21 0.98
11_F 50_L 1.209 0.98
59_L 63_G 1.207 0.98
140_I 157_S 1.207 0.98
14_V 23_A 1.203 0.98
252_V 255_N 1.202 0.98
9_R 78_D 1.197 0.98
234_G 237_S 1.187 0.98
65_Q 68_A 1.186 0.98
29_I 33_P 1.184 0.98
35_S 39_Q 1.184 0.98
76_M 79_D 1.174 0.98
213_M 218_L 1.169 0.97
15_A 50_L 1.167 0.97
53_T 58_L 1.167 0.97
96_R 128_R 1.158 0.97
20_F 57_V 1.142 0.97
116_F 291_H 1.14 0.97
184_V 188_E 1.139 0.97
13_A 23_A 1.136 0.97
173_P 239_G 1.122 0.97
233_I 237_S 1.117 0.96
37_Q 40_A 1.112 0.96
8_L 70_S 1.103 0.96
172_I 176_H 1.101 0.96
247_A 251_R 1.097 0.96
149_L 274_V 1.095 0.96
117_R 223_T 1.088 0.96
166_E 248_S 1.085 0.96
120_Y 287_N 1.083 0.96
36_Q 40_A 1.082 0.96
6_R 9_R 1.078 0.95
160_H 274_V 1.075 0.95
114_S 238_A 1.072 0.95
65_Q 69_D 1.069 0.95
162_V 272_W 1.068 0.95
116_F 120_Y 1.065 0.95
72_Q 79_D 1.064 0.95
234_G 238_A 1.063 0.95
29_I 34_L 1.061 0.95
73_I 76_M 1.055 0.95
170_A 242_V 1.049 0.94
78_D 82_A 1.048 0.94
15_A 63_G 1.034 0.94
50_L 57_V 1.033 0.94
193_P 221_V 1.028 0.94
97_I 146_M 1.022 0.93
174_H 258_R 1.016 0.93
126_Q 225_E 1.015 0.93
66_F 70_S 1.013 0.93
286_R 290_I 1.013 0.93
10_Y 27_L 1.007 0.93
14_V 20_F 1.006 0.93
176_H 179_A 1.003 0.93
14_V 50_L 1.001 0.92
287_N 290_I 1 0.92
144_L 147_G 1 0.92
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
1ixcA20.98651000.073Contact Map0.77
2h98A20.98321000.076Contact Map0.792
2h9bA20.98321000.083Contact Map0.77
2esnA40.98651000.085Contact Map0.776
3fzvA40.98651000.085Contact Map0.735
3fxqA20.97981000.09Contact Map0.793
1al3A10.98321000.094Contact Map0.808
1uthA10.98651000.096Contact Map0.764
3hhgA80.97981000.111Contact Map0.918
3szpA20.96971000.13Contact Map0.761
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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