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LYSR - Transcriptional activator protein LysR
UniProt: P03030 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10551
Length: 311 (293)
Sequences: 37046
Seq/Len: 126.44
LYSR
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
73_R 77_G 3.583 1.00
18_A 27_L 3.39 1.00
161_T 291_Q 2.572 1.00
234_V 241_S 2.477 1.00
99_A 144_H 2.419 1.00
23_E 26_H 2.37 1.00
70_E 84_A 2.263 1.00
185_T 188_D 2.22 1.00
17_T 72_Q 2.208 1.00
167_D 245_P 2.204 1.00
14_A 27_L 2.175 1.00
97_S 126_N 2.152 1.00
95_E 124_S 2.142 1.00
176_H 192_E 2.128 1.00
162_E 165_S 2.101 1.00
115_P 293_G 2.1 1.00
95_E 126_N 2.099 1.00
16_M 60_P 2.048 1.00
165_S 268_T 2.043 1.00
74_S 78_L 2.03 1.00
21_L 39_L 1.99 1.00
13_H 68_F 1.979 1.00
11_I 38_E 1.971 1.00
231_C 251_Y 1.961 1.00
70_E 77_G 1.957 1.00
68_F 72_Q 1.946 1.00
48_L 63_Q 1.939 1.00
14_A 18_A 1.901 1.00
162_E 268_T 1.889 1.00
13_H 72_Q 1.868 1.00
115_P 289_H 1.84 1.00
11_I 35_V 1.837 1.00
14_A 17_T 1.837 1.00
13_H 17_T 1.831 1.00
195_I 239_G 1.805 1.00
52_E 59_H 1.794 1.00
116_F 123_V 1.785 1.00
67_L 81_I 1.768 1.00
235_R 251_Y 1.741 1.00
16_M 68_F 1.74 1.00
137_E 141_A 1.716 1.00
169_V 245_P 1.714 1.00
193_N 221_I 1.694 1.00
17_T 27_L 1.689 1.00
62_V 65_L 1.679 1.00
12_F 68_F 1.66 1.00
13_H 71_V 1.658 1.00
135_L 147_G 1.648 1.00
116_F 286_F 1.631 1.00
22_T 32_Q 1.618 1.00
31_S 34_T 1.601 1.00
66_R 84_A 1.589 1.00
18_A 23_E 1.586 1.00
11_I 30_T 1.579 1.00
20_S 23_E 1.573 1.00
13_H 75_W 1.563 1.00
91_F 122_D 1.539 1.00
165_S 266_P 1.529 1.00
70_E 80_R 1.513 1.00
138_W 143_R 1.504 1.00
172_L 259_R 1.499 1.00
160_R 270_S 1.49 1.00
195_I 230_V 1.454 1.00
106_Q 228_A 1.443 1.00
14_A 28_L 1.432 1.00
181_K 188_D 1.426 1.00
115_P 119_R 1.426 1.00
49_K 52_E 1.419 1.00
146_L 283_V 1.418 1.00
8_H 41_R 1.416 1.00
8_H 38_E 1.403 0.99
65_L 69_E 1.399 0.99
8_H 45_V 1.387 0.99
6_L 78_L 1.38 0.99
74_S 81_I 1.363 0.99
40_A 44_K 1.349 0.99
93_Q 122_D 1.344 0.99
204_R 208_D 1.336 0.99
159_E 275_L 1.332 0.99
115_P 118_A 1.332 0.99
192_E 240_I 1.329 0.99
172_L 240_I 1.326 0.99
159_E 273_R 1.319 0.99
285_A 288_G 1.311 0.99
279_S 283_V 1.309 0.99
5_N 8_H 1.308 0.99
230_V 241_S 1.304 0.99
271_L 287_S 1.297 0.99
138_W 144_H 1.295 0.99
70_E 73_R 1.291 0.99
114_Q 118_A 1.287 0.99
177_P 192_E 1.266 0.99
287_S 291_Q 1.26 0.99
130_Q 134_L 1.246 0.98
224_T 230_V 1.24 0.98
117_L 193_N 1.232 0.98
117_L 221_I 1.229 0.98
37_R 40_A 1.227 0.98
12_F 16_M 1.225 0.98
96_L 286_F 1.221 0.98
232_A 235_R 1.219 0.98
161_T 273_R 1.217 0.98
12_F 51_F 1.216 0.98
116_F 289_H 1.215 0.98
251_Y 256_L 1.215 0.98
15_V 39_L 1.213 0.98
245_P 249_L 1.195 0.98
69_E 73_R 1.194 0.98
73_R 80_R 1.193 0.98
97_S 128_V 1.188 0.98
66_R 69_E 1.183 0.98
119_R 289_H 1.18 0.98
54_V 59_H 1.178 0.98
16_M 51_F 1.172 0.98
235_R 256_L 1.171 0.98
60_P 64_G 1.166 0.97
12_F 50_L 1.165 0.97
30_T 34_T 1.164 0.97
77_G 80_R 1.159 0.97
21_L 58_L 1.156 0.97
15_V 24_A 1.156 0.97
45_V 82_V 1.154 0.97
10_E 79_D 1.147 0.97
140_S 157_G 1.14 0.97
36_S 40_A 1.139 0.97
149_T 272_I 1.137 0.97
146_L 271_L 1.136 0.97
249_L 253_A 1.133 0.97
172_L 176_H 1.132 0.97
174_P 255_G 1.128 0.97
211_F 216_V 1.127 0.97
184_L 188_D 1.123 0.97
14_A 24_A 1.116 0.96
288_G 291_Q 1.116 0.96
273_R 287_S 1.113 0.96
151_T 270_S 1.112 0.96
284_Q 288_G 1.109 0.96
38_E 41_R 1.106 0.96
173_P 237_G 1.099 0.96
171_V 248_A 1.097 0.96
37_R 41_R 1.084 0.96
114_Q 236_A 1.077 0.95
231_C 235_R 1.075 0.95
7_R 10_E 1.072 0.95
66_R 70_E 1.07 0.95
9_I 71_V 1.068 0.95
30_T 35_V 1.066 0.95
162_E 270_S 1.066 0.95
232_A 236_A 1.062 0.95
116_F 120_Y 1.06 0.95
119_R 292_A 1.059 0.95
120_Y 285_A 1.053 0.95
160_R 272_I 1.049 0.94
70_E 81_I 1.046 0.94
99_A 149_T 1.045 0.94
170_C 240_I 1.041 0.94
51_F 58_L 1.036 0.94
79_D 83_S 1.036 0.94
67_L 71_V 1.027 0.94
166_L 246_L 1.023 0.93
82_V 86_E 1.02 0.93
78_L 81_I 1.019 0.93
16_M 64_G 1.01 0.93
130_Q 138_W 1.009 0.93
126_N 223_E 1.007 0.93
193_N 219_R 1.007 0.93
15_V 51_F 1.004 0.93
139_L 147_G 1.003 0.93
176_H 193_N 1.001 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
3fzvA40.96781000.174Contact Map0.714
2esnA40.95821000.176Contact Map0.76
1ixcA20.93571000.179Contact Map0.753
1uthA10.97111000.181Contact Map0.742
1al3A10.99041000.186Contact Map0.739
2h98A20.97751000.188Contact Map0.758
3fxqA20.96461000.191Contact Map0.783
2h9bA20.98071000.197Contact Map0.755
3szpA20.92931000.212Contact Map0.773
3hhgA80.97111000.22Contact Map0.923
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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