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OPENSEQ.org
PERR - HTH-type transcriptional regulator PerR
UniProt: Q57083 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13340
Length: 297 (284)
Sequences: 36997
Seq/Len: 130.27
PERR
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_R 80_E 3.754 1.00
21_T 30_E 3.401 1.00
158_I 288_L 2.612 1.00
227_A 234_V 2.506 1.00
99_H 141_F 2.432 1.00
26_L 29_S 2.35 1.00
73_H 87_L 2.324 1.00
164_E 238_K 2.263 1.00
179_K 182_D 2.235 1.00
20_R 75_Q 2.218 1.00
17_A 30_E 2.211 1.00
173_L 186_L 2.182 1.00
95_P 124_D 2.163 1.00
97_R 126_R 2.147 1.00
77_G 81_L 2.115 1.00
115_K 290_E 2.111 1.00
95_P 126_R 2.108 1.00
159_P 162_V 2.097 1.00
162_V 265_G 2.091 1.00
73_H 80_E 2.062 1.00
19_G 63_L 2.034 1.00
224_I 244_E 2.014 1.00
51_V 66_E 1.996 1.00
14_A 41_A 1.994 1.00
16_E 71_L 1.98 1.00
71_L 75_Q 1.956 1.00
17_A 21_T 1.918 1.00
159_P 265_G 1.901 1.00
24_F 42_I 1.896 1.00
16_E 75_Q 1.87 1.00
16_E 20_R 1.87 1.00
115_K 286_W 1.867 1.00
17_A 20_R 1.853 1.00
55_Q 62_T 1.812 1.00
228_V 244_E 1.809 1.00
14_A 38_I 1.794 1.00
189_I 232_G 1.788 1.00
166_T 238_K 1.769 1.00
70_L 84_G 1.756 1.00
116_F 123_I 1.75 1.00
19_G 71_L 1.731 1.00
69_I 87_L 1.673 1.00
65_K 68_E 1.66 1.00
228_V 249_K 1.659 1.00
15_F 71_L 1.657 1.00
16_E 74_I 1.656 1.00
187_T 214_G 1.642 1.00
162_V 263_Y 1.635 1.00
20_R 30_E 1.623 1.00
116_F 283_F 1.616 1.00
25_A 35_P 1.598 1.00
23_A 26_L 1.593 1.00
21_T 26_L 1.588 1.00
14_A 33_L 1.57 1.00
34_S 37_A 1.568 1.00
16_E 78_F 1.549 1.00
157_K 267_Y 1.532 1.00
73_H 83_Q 1.499 1.00
17_A 31_L 1.459 1.00
52_R 55_Q 1.441 1.00
11_L 44_K 1.44 1.00
77_G 84_G 1.434 1.00
106_H 221_F 1.432 1.00
11_L 41_A 1.42 1.00
115_K 119_E 1.415 1.00
11_L 48_L 1.406 0.99
189_I 223_A 1.405 0.99
143_L 280_L 1.394 0.99
186_L 233_V 1.382 0.99
9_L 81_L 1.378 0.99
43_R 47_N 1.369 0.99
68_E 72_E 1.365 0.99
70_L 85_L 1.352 0.99
156_E 272_Q 1.344 0.99
268_L 284_K 1.337 0.99
73_H 76_R 1.332 0.99
169_C 233_V 1.324 0.99
115_K 118_R 1.317 0.99
8_P 11_L 1.313 0.99
156_E 270_F 1.308 0.99
135_R 140_D 1.299 0.99
114_G 118_R 1.299 0.99
276_M 280_L 1.296 0.99
136_F 144_D 1.295 0.99
282_V 285_T 1.292 0.99
242_E 246_A 1.287 0.99
196_Y 199_K 1.282 0.99
223_A 234_V 1.278 0.99
284_K 288_L 1.27 0.99
169_C 173_L 1.269 0.99
158_I 270_F 1.256 0.99
117_I 187_T 1.246 0.98
15_F 19_G 1.244 0.98
198_W 201_W 1.241 0.98
97_R 128_S 1.234 0.98
119_E 286_W 1.231 0.98
40_H 43_R 1.226 0.98
48_L 85_L 1.225 0.98
72_E 76_R 1.221 0.98
225_A 228_V 1.218 0.98
244_E 249_K 1.209 0.98
105_A 129_A 1.204 0.98
69_I 72_E 1.2 0.98
73_H 84_G 1.2 0.98
33_L 37_A 1.192 0.98
116_F 286_W 1.19 0.98
146_V 269_V 1.189 0.98
217_F 223_A 1.188 0.98
39_S 43_R 1.188 0.98
169_C 252_C 1.183 0.98
18_A 42_I 1.179 0.98
143_L 268_L 1.176 0.98
96_L 283_F 1.175 0.98
15_F 54_F 1.174 0.98
238_K 242_E 1.171 0.98
137_E 154_P 1.171 0.98
57_S 62_T 1.171 0.98
135_R 138_Q 1.164 0.97
80_E 83_Q 1.163 0.97
202_F 207_M 1.154 0.97
19_G 54_F 1.151 0.97
13_R 82_Q 1.149 0.97
117_I 214_G 1.139 0.97
24_F 61_I 1.139 0.97
15_F 53_L 1.138 0.97
63_L 67_G 1.138 0.97
18_A 27_A 1.137 0.97
178_K 182_D 1.136 0.97
270_F 284_K 1.121 0.97
17_A 27_A 1.115 0.96
166_T 252_C 1.111 0.96
163_E 239_L 1.098 0.96
285_T 288_L 1.092 0.96
281_D 285_T 1.087 0.96
170_S 230_G 1.085 0.96
114_G 229_D 1.084 0.96
168_L 241_A 1.084 0.96
252_C 257_S 1.083 0.96
69_I 73_H 1.078 0.95
157_K 269_V 1.075 0.95
116_F 120_N 1.073 0.95
41_A 44_K 1.071 0.95
148_G 267_Y 1.071 0.95
224_I 228_V 1.068 0.95
10_N 13_R 1.068 0.95
243_R 247_S 1.068 0.95
167_P 233_V 1.068 0.95
225_A 229_D 1.067 0.95
120_N 282_V 1.065 0.95
12_L 74_I 1.063 0.95
159_P 267_Y 1.062 0.95
40_H 44_K 1.057 0.95
254_L 257_S 1.053 0.95
82_Q 86_A 1.053 0.95
76_R 83_Q 1.049 0.94
33_L 38_I 1.045 0.94
169_C 174_A 1.044 0.94
119_E 289_N 1.044 0.94
77_G 80_E 1.039 0.94
271_P 274_Q 1.032 0.94
54_F 61_I 1.03 0.94
135_R 141_F 1.029 0.94
70_L 74_I 1.007 0.93
98_L 143_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
1uthA10.98321000.116Contact Map0.773
2esnA40.97981000.118Contact Map0.775
3fzvA40.97311000.123Contact Map0.734
3fxqA20.96631000.124Contact Map0.803
3szpA20.95291000.127Contact Map0.783
3hhgA80.96971000.133Contact Map0.936
1ixcA20.93941000.137Contact Map0.781
2h98A20.95291000.141Contact Map0.777
1al3A10.95961000.141Contact Map0.755
2h9bA20.95291000.149Contact Map0.776
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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