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OPENSEQ.org
TDCA - HTH-type transcriptional regulator TdcA
UniProt: P0ACQ7 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10989
Length: 312 (292)
Sequences: 36327
Seq/Len: 124.41
TDCA
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_S 80_E 3.762 1.00
21_S 30_E 3.43 1.00
237_V 244_T 2.51 1.00
166_E 295_K 2.475 1.00
102_G 147_L 2.44 1.00
26_S 29_K 2.427 1.00
73_R 87_E 2.348 1.00
172_E 248_C 2.318 1.00
20_R 75_E 2.263 1.00
188_T 191_S 2.244 1.00
181_R 195_E 2.237 1.00
98_E 127_Q 2.196 1.00
100_S 129_S 2.196 1.00
17_E 30_E 2.19 1.00
77_I 81_M 2.124 1.00
98_E 129_S 2.123 1.00
167_P 170_E 2.112 1.00
19_I 63_L 2.103 1.00
170_E 272_Q 2.091 1.00
73_R 80_E 2.068 1.00
16_Q 71_L 2.026 1.00
14_V 41_I 1.998 1.00
71_L 75_E 1.989 1.00
24_I 42_I 1.957 1.00
51_V 66_A 1.957 1.00
17_E 21_S 1.94 1.00
167_P 272_Q 1.88 1.00
17_E 20_R 1.872 1.00
16_Q 75_E 1.86 1.00
55_V 62_T 1.86 1.00
14_V 38_V 1.86 1.00
16_Q 20_R 1.854 1.00
119_F 126_A 1.843 1.00
70_L 84_M 1.841 1.00
118_K 293_L 1.817 1.00
118_K 297_Y 1.797 1.00
198_V 242_F 1.771 1.00
19_I 71_L 1.753 1.00
174_V 248_C 1.741 1.00
65_P 68_Q 1.731 1.00
177_A 262_I 1.727 1.00
238_L 258_Q 1.717 1.00
196_Q 224_I 1.714 1.00
15_F 71_L 1.702 1.00
140_P 144_D 1.698 1.00
138_F 150_A 1.685 1.00
20_R 30_E 1.685 1.00
16_Q 74_S 1.667 1.00
69_L 87_E 1.657 1.00
25_G 35_Q 1.646 1.00
119_F 290_L 1.615 1.00
23_S 26_S 1.612 1.00
16_Q 78_T 1.607 1.00
21_S 26_S 1.59 1.00
94_E 125_K 1.586 1.00
34_T 37_A 1.584 1.00
14_V 33_L 1.581 1.00
170_E 270_V 1.551 1.00
174_V 261_T 1.532 1.00
141_A 146_R 1.509 1.00
73_R 83_N 1.509 1.00
165_V 274_A 1.489 1.00
77_I 84_M 1.474 1.00
109_F 231_V 1.473 1.00
17_E 31_L 1.467 1.00
198_V 233_I 1.46 1.00
52_E 55_V 1.452 1.00
68_Q 72_S 1.45 1.00
207_Y 211_L 1.429 1.00
11_H 44_D 1.427 1.00
11_H 41_I 1.423 1.00
118_K 122_V 1.421 1.00
149_F 287_A 1.414 1.00
9_T 81_M 1.399 0.99
11_H 48_Y 1.381 0.99
43_N 47_D 1.375 0.99
96_V 125_K 1.356 0.99
195_E 243_L 1.352 0.99
177_A 243_L 1.349 0.99
118_K 121_E 1.345 0.99
164_H 277_W 1.334 0.99
70_L 85_V 1.33 0.99
275_A 291_V 1.322 0.99
164_H 279_K 1.314 0.99
73_R 76_S 1.313 0.99
141_A 147_L 1.309 0.99
283_I 287_A 1.308 0.99
233_I 244_T 1.303 0.99
117_N 121_E 1.299 0.99
133_A 137_S 1.293 0.99
289_V 292_E 1.268 0.99
48_Y 85_V 1.252 0.99
227_T 233_I 1.252 0.99
18_V 42_I 1.244 0.98
179_K 258_Q 1.244 0.98
15_F 19_I 1.239 0.98
8_K 11_H 1.231 0.98
120_K 196_Q 1.227 0.98
40_K 43_N 1.226 0.98
72_S 76_S 1.219 0.98
166_E 277_W 1.215 0.98
100_S 131_Y 1.213 0.98
99_V 290_L 1.209 0.98
122_V 293_L 1.205 0.98
19_I 54_V 1.198 0.98
15_F 54_V 1.196 0.98
291_V 295_K 1.194 0.98
108_G 132_E 1.192 0.98
18_V 27_A 1.19 0.98
177_A 181_R 1.189 0.98
73_R 84_M 1.189 0.98
69_L 72_S 1.189 0.98
235_N 238_L 1.188 0.98
187_T 191_S 1.18 0.98
24_I 61_V 1.179 0.98
33_L 37_A 1.178 0.98
120_K 224_I 1.176 0.98
143_R 162_D 1.174 0.98
15_F 53_L 1.172 0.98
149_F 275_A 1.17 0.97
13_V 82_K 1.169 0.97
39_S 43_N 1.165 0.97
119_F 293_L 1.165 0.97
63_L 67_G 1.159 0.97
80_E 83_N 1.152 0.97
57_K 62_T 1.142 0.97
252_S 255_G 1.137 0.97
179_K 260_I 1.131 0.97
214_L 219_I 1.124 0.97
167_P 274_A 1.123 0.97
17_E 27_A 1.122 0.97
248_C 252_S 1.119 0.96
288_S 292_E 1.115 0.96
277_W 291_V 1.113 0.96
178_S 240_A 1.1 0.96
175_L 243_L 1.092 0.96
261_T 264_V 1.088 0.96
235_N 239_N 1.088 0.96
10_Q 13_V 1.084 0.96
12_L 74_S 1.079 0.95
117_N 239_N 1.077 0.95
69_L 73_R 1.075 0.95
33_L 38_V 1.074 0.95
181_R 196_Q 1.07 0.95
54_V 61_V 1.064 0.95
40_K 44_D 1.063 0.95
165_V 276_V 1.062 0.95
101_F 149_F 1.061 0.95
41_I 44_D 1.061 0.95
292_E 295_K 1.06 0.95
119_F 123_F 1.059 0.95
142_I 150_A 1.053 0.95
152_G 276_V 1.049 0.94
76_S 83_N 1.048 0.94
77_I 80_E 1.045 0.94
82_K 86_N 1.042 0.94
234_Y 238_L 1.034 0.94
122_V 296_E 1.03 0.94
171_S 249_D 1.025 0.93
278_S 281_Y 1.014 0.93
129_S 226_K 1.011 0.93
176_V 251_T 1.01 0.93
19_I 67_G 1.005 0.93
123_F 289_V 1.003 0.93
177_A 182_T 1.001 0.92
133_A 141_A 1 0.92
248_C 261_T 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
3fxqA20.97121000.179Contact Map0.783
2esnA40.97121000.189Contact Map0.766
1uthA10.97441000.192Contact Map0.777
3fzvA40.96151000.196Contact Map0.717
1ixcA20.92951000.2Contact Map0.773
1al3A10.97761000.204Contact Map0.764
2h98A20.96471000.207Contact Map0.768
2h9bA20.96151000.218Contact Map0.768
3szpA20.92311000.226Contact Map0.777
3hhgA80.96471000.239Contact Map0.933
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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