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OPENSEQ.org
TRUA - tRNA pseudouridine synthase A
UniProt: P07649 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10454
Length: 270 (249)
Sequences: 2675
Seq/Len: 10.74
TRUA
Paralog alert: 0.13 [within 20: 0.00] - ratio of genomes with paralogs
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
162_T 174_P 3.25 1.00
11_K 73_E 3.184 1.00
163_S 230_A 2.909 1.00
117_R 195_K 2.782 1.00
115_A 251_D 2.717 1.00
11_K 71_H 2.492 1.00
225_A 229_A 2.471 1.00
154_C 225_A 2.468 1.00
137_T 212_M 2.436 1.00
158_E 177_N 2.364 1.00
148_M 215_G 2.343 1.00
247_L 250_V 2.323 1.00
36_Q 40_E 2.315 1.00
203_M 207_I 2.298 1.00
37_E 41_K 2.202 1.00
117_R 193_D 2.149 1.00
150_R 221_E 2.125 1.00
22_K 94_D 2.1 1.00
149_H 153_Q 2.083 1.00
28_R 40_E 2.062 1.00
33_R 38_K 2.045 1.00
194_I 207_I 2.035 1.00
115_A 195_K 2.033 1.00
192_V 208_V 2.003 1.00
38_K 41_K 1.99 1.00
153_Q 156_L 1.974 1.00
121_I 246_Y 1.951 1.00
26_W 70_V 1.942 1.00
181_I 192_V 1.919 1.00
210_S 224_I 1.909 1.00
13_A 101_K 1.896 1.00
24_Y 32_V 1.889 1.00
23_Y 33_R 1.885 1.00
219_Q 223_W 1.883 1.00
119_R 193_D 1.862 1.00
223_W 226_E 1.792 1.00
71_H 109_A 1.744 1.00
39_L 70_V 1.675 1.00
154_C 221_E 1.666 1.00
84_T 100_V 1.665 1.00
39_L 97_V 1.662 1.00
178_V 194_I 1.628 1.00
117_R 251_D 1.628 1.00
152_A 211_L 1.627 1.00
66_T 248_V 1.614 1.00
119_R 191_V 1.595 1.00
180_H 195_K 1.568 1.00
155_L 207_I 1.552 1.00
181_I 194_I 1.551 1.00
33_R 94_D 1.541 1.00
14_L 70_V 1.54 1.00
13_A 69_V 1.526 1.00
210_S 237_A 1.489 1.00
23_Y 94_D 1.481 1.00
119_R 248_V 1.466 1.00
16_I 70_V 1.452 1.00
152_A 181_I 1.445 1.00
45_Q 90_N 1.429 1.00
96_A 128_R 1.419 1.00
129_P 136_V 1.408 1.00
202_H 206_N 1.405 0.99
24_Y 61_A 1.399 0.99
176_R 198_A 1.374 0.99
213_E 218_N 1.371 0.99
158_E 197_N 1.369 0.99
21_S 64_H 1.362 0.99
19_D 133_S 1.355 0.99
28_R 37_E 1.348 0.99
10_Y 102_T 1.345 0.99
38_K 95_I 1.341 0.99
122_I 192_V 1.333 0.99
26_W 55_C 1.322 0.99
12_I 100_V 1.319 0.99
213_E 219_Q 1.315 0.99
18_Y 68_Q 1.306 0.99
144_D 217_H 1.285 0.99
179_M 197_N 1.278 0.99
149_H 183_V 1.269 0.99
41_K 45_Q 1.253 0.99
143_L 148_M 1.245 0.98
214_V 224_I 1.241 0.98
23_Y 95_I 1.239 0.98
23_Y 35_V 1.227 0.98
53_V 70_V 1.224 0.98
152_A 183_V 1.222 0.98
21_S 134_K 1.217 0.98
15_G 99_W 1.207 0.98
49_E 75_T 1.206 0.98
16_I 39_L 1.204 0.98
220_P 223_W 1.189 0.98
57_G 68_Q 1.175 0.98
195_K 251_D 1.163 0.97
150_R 153_Q 1.154 0.97
149_H 182_N 1.152 0.97
34_S 37_E 1.142 0.97
141_E 216_A 1.141 0.97
154_C 222_S 1.136 0.97
44_S 50_P 1.136 0.97
149_H 185_R 1.135 0.97
220_P 224_I 1.132 0.97
19_D 134_K 1.126 0.97
19_D 135_G 1.125 0.97
40_E 53_V 1.119 0.96
124_N 190_V 1.116 0.96
151_A 214_V 1.111 0.96
15_G 69_V 1.11 0.96
115_A 179_M 1.109 0.96
17_E 130_A 1.092 0.96
43_L 72_F 1.087 0.96
124_N 185_R 1.083 0.96
163_S 231_K 1.078 0.95
160_D 231_K 1.074 0.95
12_I 74_T 1.073 0.95
148_M 211_L 1.071 0.95
179_M 195_K 1.069 0.95
137_T 243_E 1.065 0.95
17_E 98_R 1.063 0.95
151_A 221_E 1.054 0.95
147_R 217_H 1.053 0.95
151_A 215_G 1.052 0.95
28_R 52_T 1.049 0.94
165_R 169_C 1.046 0.94
22_K 134_K 1.046 0.94
206_N 239_T 1.042 0.94
103_V 106_D 1.036 0.94
122_I 212_M 1.033 0.94
194_I 208_V 1.024 0.93
165_R 174_P 1.022 0.93
144_D 147_R 1.021 0.93
108_H 111_F 1.018 0.93
183_V 192_V 1.018 0.93
147_R 150_R 1.014 0.93
156_L 180_H 1.006 0.93
178_V 196_A 1.006 0.93
145_A 149_H 1.002 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
1dj0A20.97781000.045Contact Map0.883
1vs3A20.90741000.079Contact Map0.711
4j37A10.97781000.162Contact Map0.706
2v9kA10.844493.30.933Contact Map0.532
2l0cA10.15566.60.972Contact Map0.259
3trgA10.32225.60.973Contact Map0.086
4i4m610.17415.30.973Contact Map0.416
1gxuA10.30743.80.975Contact Map0.169
2wh6B10.09263.60.975Contact Map1
1urrA10.33333.60.975Contact Map0.092
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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