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OPENSEQ.org
YGDR - Uncharacterized lipoprotein YgdR
UniProt: P65294 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13076
Length: 72 (72)
Sequences: 189
Seq/Len: 2.62
YGDR
Paralog alert: 0.92 [within 20: 0.06] - ratio of genomes with paralogs
Cluster includes: YGDI YGDR
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
12_G 21_S 1.741 0.98
23_D 38_G 1.644 0.97
24_Y 39_K 1.485 0.94
23_D 50_S 1.469 0.94
43_D 46_T 1.43 0.92
5_A 8_I 1.427 0.92
4_W 8_I 1.401 0.91
6_V 14_A 1.397 0.91
37_D 59_M 1.367 0.90
44_D 63_R 1.323 0.88
2_K 21_S 1.265 0.85
2_K 18_S 1.261 0.84
11_V 69_I 1.256 0.84
39_K 60_Q 1.252 0.84
29_K 67_S 1.238 0.83
28_T 60_Q 1.232 0.82
5_A 13_L 1.206 0.80
42_I 63_R 1.205 0.80
28_T 46_T 1.195 0.80
10_A 57_N 1.191 0.79
45_D 62_N 1.189 0.79
27_A 48_L 1.183 0.79
42_I 49_V 1.181 0.79
54_Q 70_I 1.158 0.77
22_S 43_D 1.139 0.75
4_W 52_H 1.139 0.75
18_S 64_D 1.138 0.75
18_S 48_L 1.136 0.75
45_D 71_E 1.135 0.75
23_D 35_L 1.118 0.73
11_V 52_H 1.099 0.71
25_V 70_I 1.073 0.68
6_V 9_S 1.064 0.68
24_Y 36_T 1.036 0.65
2_K 13_L 1.035 0.64
30_D 67_S 1.034 0.64
8_I 12_G 1.027 0.64
49_V 69_I 1.023 0.63
36_T 41_E 1.014 0.62
16_A 71_E 1.008 0.61
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
2rb6A20.736199.90.222Contact Map0.384
2jn0A10.736199.90.225Contact Map0.183
2rd1A30.736199.90.23Contact Map0.316
3bduA70.736199.90.232Contact Map0.462
2k57A10.736199.90.233Contact Map0.282
2ra2A60.7599.90.247Contact Map0.523
3tlkA30.694492.90.807Contact Map0
3ombA1184.80.836Contact Map0.048
4edpA20.972284.10.837Contact Map0.052
4fajA10.986182.90.839Contact Map0.145
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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