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OPENSEQ.org
YFJR - Uncharacterized HTH-type transcriptional regulator YfjR
UniProt: P52133 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13204
Length: 233 (197)
Sequences: 2069
Seq/Len: 10.50
YFJR
Paralog alert: 0.43 [within 20: 0.13] - 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
131_L 141_V 5.082 1.00
143_L 153_L 4.013 1.00
153_L 167_L 3.954 1.00
143_L 183_I 3.34 1.00
142_T 187_Q 3.164 1.00
140_R 154_A 3.114 1.00
39_V 44_L 2.782 1.00
133_Q 137_G 2.47 1.00
31_R 35_A 2.47 1.00
144_I 185_L 2.334 1.00
33_L 44_L 2.235 1.00
140_R 151_E 2.203 1.00
14_R 47_D 2.201 1.00
142_T 151_E 2.156 1.00
139_R 188_P 2.149 1.00
144_I 149_R 2.017 1.00
72_E 102_A 1.973 1.00
139_R 190_Q 1.907 1.00
183_I 186_I 1.878 1.00
142_T 189_L 1.869 1.00
146_E 184_H 1.793 1.00
30_V 45_R 1.784 1.00
156_C 193_F 1.773 1.00
140_R 191_E 1.729 1.00
102_A 105_M 1.698 1.00
29_S 32_K 1.615 1.00
49_R 52_L 1.565 1.00
21_R 37_F 1.559 1.00
171_H 178_F 1.551 1.00
58_E 67_R 1.537 1.00
138_R 195_R 1.533 1.00
43_T 46_R 1.521 1.00
31_R 41_V 1.504 1.00
27_T 65_R 1.484 1.00
142_T 149_R 1.465 1.00
150_C 178_F 1.456 1.00
198_S 201_R 1.456 1.00
150_C 171_H 1.433 1.00
172_E 178_F 1.417 1.00
30_V 41_V 1.404 0.99
143_L 186_I 1.373 0.99
30_V 64_C 1.366 0.99
130_R 188_P 1.356 0.99
153_L 169_A 1.326 0.99
133_Q 188_P 1.305 0.99
138_R 193_F 1.296 0.99
143_L 178_F 1.288 0.99
172_E 176_A 1.274 0.99
144_I 184_H 1.26 0.99
139_R 192_T 1.259 0.99
130_R 186_I 1.259 0.99
169_A 178_F 1.258 0.99
164_T 179_T 1.255 0.99
151_E 189_L 1.243 0.98
21_R 28_L 1.227 0.98
154_A 193_F 1.221 0.98
201_R 205_D 1.22 0.98
78_D 102_A 1.201 0.98
141_V 153_L 1.186 0.98
151_E 191_E 1.178 0.98
55_L 70_G 1.173 0.98
44_L 47_D 1.158 0.97
99_L 102_A 1.153 0.97
19_I 66_L 1.152 0.97
170_E 173_G 1.141 0.97
145_A 150_C 1.139 0.97
166_Y 177_V 1.128 0.97
34_A 44_L 1.126 0.97
155_P 167_L 1.125 0.97
171_H 176_A 1.117 0.96
41_V 45_R 1.106 0.96
139_R 189_L 1.096 0.96
32_K 35_A 1.096 0.96
130_R 133_Q 1.093 0.96
156_C 169_A 1.089 0.96
72_E 105_M 1.079 0.95
141_V 186_I 1.072 0.95
21_R 36_E 1.067 0.95
55_L 66_L 1.057 0.95
15_L 47_D 1.053 0.95
49_R 53_M 1.044 0.94
101_N 104_L 1.042 0.94
99_L 103_L 1.04 0.94
19_I 55_L 1.036 0.94
40_S 47_D 1.034 0.94
30_V 44_L 1.015 0.93
145_A 178_F 1.008 0.93
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
1j5yA10.622397.80.846Contact Map0.783
2heoA20.270497.70.85Contact Map0.752
2l0kA10.334897.70.851Contact Map0.532
2p5kA10.253297.60.852Contact Map0.774
3sqnA20.86797.40.858Contact Map0.504
1oyiA10.317697.10.866Contact Map0.435
1b4aA60.519397.10.866Contact Map0.796
3lapA60.553696.50.876Contact Map0.747
4a0zA20.69196.40.876Contact Map0.804
1biaA10.86796.40.876Contact Map0.685
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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