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OPENSEQ.org
BAMD - Outer membrane protein assembly factor BamD
UniProt: P0AC02 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG14222
Length: 245 (239)
Sequences: 781
Seq/Len: 3.27
BAMD
Paralog alert: 0.01 [within 20: 0.00] - 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
84_D 87_L 2.798 1.00
183_E 213_D 2.734 1.00
72_Q 99_N 2.581 1.00
96_I 109_M 2.502 1.00
144_F 167_L 2.484 1.00
96_I 105_I 2.403 1.00
95_F 102_H 2.146 1.00
113_G 147_F 2.103 1.00
186_T 221_A 2.033 1.00
39_A 55_L 1.994 1.00
52_I 78_A 1.969 1.00
148_S 152_R 1.917 1.00
150_L 157_S 1.874 0.99
89_Q 115_T 1.77 0.99
234_V 238_I 1.769 0.99
200_G 204_D 1.766 0.99
223_R 231_A 1.765 0.99
186_T 220_N 1.759 0.99
55_L 75_L 1.755 0.99
76_I 111_M 1.707 0.99
110_Y 162_D 1.707 0.99
105_I 154_Y 1.686 0.99
92_I 115_T 1.674 0.98
182_A 217_L 1.669 0.98
199_E 203_R 1.618 0.98
73_L 108_V 1.615 0.98
93_D 112_R 1.573 0.97
79_Y 87_L 1.543 0.97
183_E 187_E 1.531 0.97
77_Y 111_M 1.525 0.97
106_D 157_S 1.514 0.97
79_Y 91_A 1.513 0.97
58_L 62_Y 1.504 0.96
39_A 54_Q 1.491 0.96
106_D 150_L 1.467 0.96
182_A 198_V 1.459 0.96
198_V 217_L 1.449 0.95
200_G 203_R 1.446 0.95
92_I 112_R 1.442 0.95
125_Q 132_R 1.358 0.93
59_D 94_R 1.354 0.93
33_N 37_A 1.35 0.92
235_A 239_A 1.32 0.91
202_L 211_T 1.295 0.90
137_P 140_A 1.294 0.90
40_Q 55_L 1.288 0.90
76_I 92_I 1.287 0.90
110_Y 114_L 1.281 0.90
50_Q 54_Q 1.28 0.90
13_L 16_F 1.264 0.89
125_Q 129_G 1.257 0.88
21_S 29_D 1.25 0.88
84_D 88_A 1.246 0.88
149_K 153_G 1.239 0.87
79_Y 84_D 1.233 0.87
233_K 236_K 1.226 0.87
77_Y 92_I 1.225 0.87
185_Y 193_A 1.22 0.86
195_V 218_M 1.205 0.85
147_F 150_L 1.199 0.85
107_Y 159_Y 1.171 0.83
219_E 235_A 1.168 0.83
56_E 79_Y 1.159 0.82
72_Q 94_R 1.151 0.82
147_F 163_A 1.15 0.82
38_T 54_Q 1.138 0.81
29_D 73_L 1.134 0.80
149_K 152_R 1.132 0.80
93_D 97_R 1.132 0.80
162_D 166_R 1.132 0.80
47_N 50_Q 1.131 0.80
77_Y 241_N 1.124 0.79
41_Q 205_Y 1.119 0.79
150_L 160_T 1.118 0.79
105_I 109_M 1.117 0.79
69_Q 99_N 1.112 0.78
41_Q 45_D 1.109 0.78
34_E 38_T 1.104 0.78
68_S 99_N 1.1 0.77
238_I 245_T 1.097 0.77
174_L 208_T 1.096 0.77
85_L 137_P 1.095 0.77
75_L 91_A 1.094 0.77
126_G 132_R 1.09 0.76
125_Q 130_V 1.086 0.76
178_E 197_R 1.081 0.76
92_I 111_M 1.078 0.75
126_G 129_G 1.074 0.75
147_F 166_R 1.074 0.75
35_I 184_Y 1.063 0.74
49_R 58_L 1.052 0.73
116_N 143_A 1.049 0.72
151_V 167_L 1.047 0.72
202_L 206_P 1.047 0.72
78_A 181_V 1.045 0.72
42_K 54_Q 1.044 0.72
172_D 210_A 1.041 0.72
165_K 169_F 1.031 0.71
52_I 82_N 1.031 0.71
36_Y 74_D 1.028 0.70
129_G 132_R 1.028 0.70
73_L 106_D 1.024 0.70
68_S 188_R 1.021 0.70
51_A 90_A 1.02 0.69
208_T 215_L 1.019 0.69
213_D 217_L 1.019 0.69
35_I 57_A 1.011 0.68
47_N 191_W 1.01 0.68
130_V 133_S 1.007 0.68
70_Q 74_D 1.005 0.68
76_I 108_V 1.002 0.67
31_P 34_E 1.001 0.67
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
3qkyA10.88981000.582Contact Map0.729
2yhcA10.885799.90.644Contact Map0.684
2xevA30.526599.60.763Contact Map0.828
3iegA20.75199.40.795Contact Map0.626
2y4tA30.857199.30.797Contact Map0.727
4kvmA40.873599.30.798Contact Map0.552
4gywA20.726599.30.798Contact Map0.702
4i17A10.755199.30.802Contact Map0.589
2gw1A20.808299.30.803Contact Map0.667
2pl2A20.820499.20.806Contact Map0.6
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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