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OPENSEQ.org
YJDC - HTH-type transcriptional regulator YjdC
UniProt: P0ACU7 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG12176
Length: 191 (181)
Sequences: 15618
Seq/Len: 86.29
YJDC
Paralog alert: 0.81 [within 20: 0.21] - ratio of genomes with paralogs
Cluster includes: ACRR BDCR BETI COMR ENVR NEMR RUTR SLMA UIDR YBIH YBJK YJDC
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
17_Q 26_M 4.258 1.00
12_K 30_R 3.756 1.00
25_E 35_L 3.409 1.00
43_P 47_A 2.915 1.00
13_L 22_T 2.587 1.00
4_E 55_Y 2.416 1.00
16_L 30_R 2.346 1.00
2_Q 5_D 2.296 1.00
14_L 22_T 2.23 1.00
74_T 77_Q 2.16 1.00
9_E 30_R 2.093 1.00
34_P 37_E 2.064 1.00
28_A 38_L 2.044 1.00
44_D 47_A 2.012 1.00
3_R 51_D 2.011 1.00
51_D 54_R 2.006 1.00
10_A 14_L 1.992 1.00
4_E 8_G 1.975 1.00
130_H 134_T 1.971 1.00
78_K 135_T 1.95 1.00
54_R 117_L 1.949 1.00
130_H 142_A 1.886 1.00
5_D 9_E 1.844 1.00
25_E 29_E 1.712 1.00
24_L 38_L 1.675 1.00
13_L 30_R 1.648 1.00
84_Q 172_H 1.643 1.00
8_G 55_Y 1.626 1.00
22_T 27_V 1.594 1.00
14_L 19_I 1.571 1.00
13_L 17_Q 1.565 1.00
47_A 51_D 1.555 1.00
11_L 55_Y 1.554 1.00
126_Y 142_A 1.541 1.00
10_A 48_I 1.532 1.00
24_L 39_R 1.512 1.00
13_L 26_M 1.511 1.00
7_L 51_D 1.51 1.00
12_K 16_L 1.482 1.00
55_Y 59_Q 1.46 1.00
24_L 35_L 1.443 1.00
9_E 12_K 1.438 1.00
19_I 49_L 1.414 1.00
46_E 111_G 1.414 1.00
18_G 22_T 1.398 0.99
80_L 176_E 1.37 0.99
147_Q 151_V 1.366 0.99
9_E 31_V 1.352 0.99
150_L 154_G 1.349 0.99
126_Y 146_K 1.347 0.99
80_L 84_Q 1.33 0.99
7_L 52_A 1.329 0.99
18_G 21_N 1.316 0.99
50_Y 54_R 1.312 0.99
134_T 141_P 1.309 0.99
39_R 44_D 1.294 0.99
26_M 29_E 1.283 0.99
50_Y 117_L 1.273 0.99
65_R 128_F 1.27 0.99
26_M 30_R 1.265 0.99
42_W 51_D 1.265 0.99
77_Q 81_A 1.248 0.99
9_E 13_L 1.244 0.98
23_T 26_M 1.235 0.98
140_D 143_M 1.231 0.98
11_L 52_A 1.227 0.98
33_Y 37_E 1.224 0.98
37_E 40_R 1.214 0.98
76_E 180_R 1.179 0.98
17_Q 22_T 1.175 0.98
126_Y 130_H 1.172 0.98
3_R 41_F 1.171 0.98
123_S 127_D 1.168 0.97
54_R 58_Q 1.167 0.97
8_G 12_K 1.166 0.97
7_L 42_W 1.163 0.97
37_E 41_F 1.151 0.97
78_K 132_L 1.139 0.97
11_L 15_E 1.136 0.97
46_E 113_P 1.106 0.96
36_D 40_R 1.081 0.95
46_E 50_Y 1.058 0.95
133_L 141_P 1.052 0.95
27_V 48_I 1.049 0.94
6_V 41_F 1.044 0.94
11_L 56_L 1.041 0.94
81_A 84_Q 1.037 0.94
38_L 48_I 1.036 0.94
58_Q 62_V 1.036 0.94
88_E 92_N 1.032 0.94
17_Q 21_N 1.025 0.93
47_A 50_Y 1.018 0.93
130_H 141_P 1.015 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
3g7rA20.979199.90.205Contact Map0.712
3dpjA80.973899.90.209Contact Map0.772
2ibdA20.958199.90.216Contact Map0.746
3bruA20.968699.90.223Contact Map0.696
2hyjA10.947699.90.225Contact Map0.621
3eupA20.973899.90.225Contact Map0.752
2g7sA10.942499.90.227Contact Map0.626
1sgmA20.952999.90.227Contact Map0.682
2xdnA4199.90.227Contact Map0.719
3jsjA40.952999.90.231Contact Map0.683
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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