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OPENSEQ.org
TTDR - HTH-type transcriptional activator TtdR
UniProt: P45463 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG12694
Length: 310 (291)
Sequences: 36790
Seq/Len: 126.43
TTDR
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
75_E 79_Q 3.739 1.00
20_S 29_T 3.377 1.00
160_H 293_A 2.618 1.00
235_A 242_M 2.493 1.00
101_G 143_I 2.447 1.00
25_A 28_A 2.345 1.00
72_H 86_D 2.334 1.00
166_K 246_E 2.244 1.00
175_Y 191_H 2.233 1.00
19_H 74_L 2.217 1.00
16_E 29_T 2.212 1.00
184_S 187_E 2.206 1.00
99_R 128_H 2.154 1.00
97_M 126_Q 2.147 1.00
97_M 128_H 2.127 1.00
161_L 164_K 2.119 1.00
117_E 295_W 2.1 1.00
76_I 80_Y 2.096 1.00
164_K 270_N 2.084 1.00
72_H 79_Q 2.056 1.00
18_V 62_L 2.041 1.00
232_L 252_F 1.988 1.00
15_V 70_Y 1.975 1.00
13_V 40_R 1.975 1.00
50_T 65_S 1.972 1.00
23_F 41_I 1.946 1.00
70_Y 74_L 1.931 1.00
161_L 270_N 1.92 1.00
16_E 20_S 1.898 1.00
15_V 19_H 1.888 1.00
15_V 74_L 1.88 1.00
117_E 291_F 1.86 1.00
16_E 19_H 1.853 1.00
54_N 61_A 1.82 1.00
69_C 83_L 1.811 1.00
194_L 240_G 1.801 1.00
13_V 37_V 1.8 1.00
168_I 246_E 1.796 1.00
236_L 252_F 1.783 1.00
118_L 125_L 1.781 1.00
18_V 70_Y 1.743 1.00
192_D 222_H 1.681 1.00
64_E 67_Q 1.671 1.00
236_L 257_K 1.668 1.00
15_V 73_A 1.668 1.00
68_R 86_D 1.649 1.00
19_H 29_T 1.638 1.00
14_L 70_Y 1.636 1.00
24_S 34_P 1.623 1.00
164_K 268_S 1.621 1.00
22_S 25_A 1.595 1.00
118_L 288_C 1.591 1.00
13_V 32_Q 1.59 1.00
33_T 36_F 1.586 1.00
20_S 25_A 1.582 1.00
15_V 77_L 1.552 1.00
159_A 272_W 1.527 1.00
93_R 124_E 1.526 1.00
72_H 82_R 1.498 1.00
76_I 83_L 1.466 1.00
10_D 43_I 1.466 1.00
108_R 229_E 1.458 1.00
137_D 140_Q 1.443 1.00
16_E 30_L 1.443 1.00
194_L 231_V 1.431 1.00
117_E 121_N 1.423 1.00
168_I 260_Q 1.42 1.00
51_T 54_N 1.42 1.00
180_P 187_E 1.417 1.00
10_D 40_R 1.411 1.00
145_L 285_L 1.401 0.99
10_D 47_T 1.393 0.99
191_H 241_I 1.383 0.99
69_C 84_V 1.371 0.99
158_I 277_E 1.37 0.99
67_Q 71_E 1.363 0.99
95_E 124_E 1.353 0.99
42_Q 46_N 1.348 0.99
171_A 261_V 1.347 0.99
158_I 275_Y 1.345 0.99
72_H 75_E 1.337 0.99
250_L 254_E 1.321 0.99
287_V 290_E 1.316 0.99
273_A 289_V 1.316 0.99
171_A 241_I 1.314 0.99
138_L 146_D 1.298 0.99
116_T 120_R 1.298 0.99
117_E 120_R 1.296 0.99
289_V 293_A 1.294 0.99
181_Q 259_V 1.29 0.99
231_V 242_M 1.288 0.99
47_T 84_V 1.28 0.99
281_R 285_L 1.269 0.99
160_H 275_Y 1.25 0.99
119_M 192_D 1.248 0.99
225_S 231_V 1.243 0.98
14_L 18_V 1.239 0.98
121_N 291_F 1.238 0.98
99_R 130_E 1.234 0.98
118_L 291_F 1.225 0.98
32_Q 36_F 1.22 0.98
39_K 42_Q 1.218 0.98
233_Q 236_L 1.214 0.98
252_F 257_K 1.213 0.98
71_E 75_E 1.212 0.98
72_H 83_L 1.209 0.98
8_A 80_Y 1.208 0.98
246_E 250_L 1.203 0.98
14_L 53_L 1.201 0.98
56_S 61_A 1.2 0.98
171_A 175_Y 1.188 0.98
68_R 71_E 1.182 0.98
107_G 131_L 1.181 0.98
139_V 156_Y 1.176 0.98
119_M 222_H 1.175 0.98
145_L 273_A 1.171 0.98
7_L 10_D 1.17 0.97
79_Q 82_R 1.168 0.97
148_R 274_V 1.167 0.97
98_I 288_C 1.164 0.97
17_I 26_A 1.154 0.97
14_L 52_L 1.152 0.97
17_I 41_I 1.15 0.97
183_Q 187_E 1.147 0.97
23_F 60_V 1.142 0.97
135_Q 146_D 1.141 0.97
38_T 42_Q 1.136 0.97
62_L 66_G 1.132 0.97
18_V 53_L 1.13 0.97
12_Q 81_Q 1.13 0.97
275_Y 289_V 1.125 0.97
40_R 43_I 1.108 0.96
290_E 293_A 1.101 0.96
286_R 290_E 1.099 0.96
172_A 238_G 1.094 0.96
161_L 272_W 1.092 0.96
16_E 26_A 1.092 0.96
116_T 237_E 1.083 0.96
159_A 274_V 1.083 0.96
68_R 72_H 1.082 0.96
260_Q 263_P 1.081 0.95
170_C 249_V 1.08 0.95
39_K 43_I 1.08 0.95
150_N 272_W 1.079 0.95
9_K 12_Q 1.071 0.95
118_L 122_Y 1.07 0.95
175_Y 192_D 1.069 0.95
121_N 294_A 1.066 0.95
165_N 247_W 1.065 0.95
233_Q 237_E 1.064 0.95
169_L 241_I 1.063 0.95
246_E 260_Q 1.06 0.95
11_L 73_A 1.058 0.95
232_L 236_L 1.058 0.95
101_G 148_R 1.054 0.95
212_Q 217_V 1.05 0.94
76_I 79_Q 1.049 0.94
122_Y 287_V 1.048 0.94
32_Q 37_V 1.045 0.94
53_L 60_V 1.044 0.94
192_D 220_S 1.042 0.94
128_H 224_S 1.041 0.94
173_P 257_K 1.037 0.94
69_C 73_A 1.031 0.94
75_E 82_R 1.03 0.94
251_P 255_S 1.02 0.93
81_Q 85_D 1.019 0.93
137_D 142_N 1.018 0.93
276_R 279_L 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
2esnA40.96131000.182Contact Map0.768
3szpA20.93551000.189Contact Map0.781
3fzvA40.96451000.191Contact Map0.708
1uthA10.9711000.192Contact Map0.751
1ixcA20.93231000.194Contact Map0.761
3hhgA80.97741000.195Contact Map0.927
3fxqA20.96131000.2Contact Map0.789
2h98A20.9711000.202Contact Map0.719
3mz1A40.95811000.204Contact Map0.759
2h9bA20.9711000.206Contact Map0.716
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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