May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
OPPB - Oligopeptide transport system permease protein OppB
UniProt: P0AFH2 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10675
Length: 306 (305)
Sequences: 7414
Seq/Len: 24.31
OPPB
Paralog alert: 0.82 [within 20: 0.36] - ratio of genomes with paralogs
Cluster includes: DDPB DDPC DPPB DPPC GSIC GSID NIKB NIKC OPPB OPPC SAPB SAPC YEJB YEJE
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
57_D 61_T 3.678 1.00
51_A 56_N 3.526 1.00
28_R 62_Q 3.425 1.00
57_D 65_S 3.357 1.00
20_I 63_Y 3.226 1.00
68_K 72_H 3.134 1.00
33_S 50_E 3.061 1.00
43_P 47_A 3.006 1.00
64_F 68_K 2.979 1.00
210_R 216_M 2.754 1.00
21_T 63_Y 2.686 1.00
197_M 224_A 2.655 1.00
218_R 222_R 2.622 1.00
96_V 256_L 2.554 1.00
206_I 224_A 2.537 1.00
60_M 64_F 2.43 1.00
103_A 178_M 2.405 1.00
233_L 300_I 2.23 1.00
261_Q 265_N 2.19 1.00
161_L 175_I 2.189 1.00
89_L 262_L 2.168 1.00
237_G 293_V 2.111 1.00
161_L 172_K 2.079 1.00
200_V 205_F 2.079 1.00
107_L 182_S 2.006 1.00
128_D 194_R 2.006 1.00
126_K 130_T 1.928 1.00
19_L 283_G 1.926 1.00
208_T 212_K 1.918 1.00
3_K 7_R 1.889 1.00
201_L 224_A 1.883 1.00
234_S 297_Y 1.879 1.00
69_Q 74_D 1.869 1.00
215_P 218_R 1.855 1.00
115_A 131_V 1.824 1.00
48_N 52_K 1.821 1.00
110_I 114_S 1.806 1.00
84_Y 88_D 1.785 1.00
45_V 48_N 1.779 1.00
70_L 75_F 1.767 1.00
46_M 50_E 1.765 1.00
61_T 65_S 1.754 1.00
122_K 125_T 1.747 1.00
200_V 203_S 1.732 1.00
20_I 66_Y 1.696 1.00
217_R 221_L 1.696 1.00
16_L 284_A 1.686 1.00
47_A 51_A 1.68 1.00
81_Y 89_L 1.67 1.00
111_L 114_S 1.666 1.00
17_F 21_T 1.665 1.00
296_L 299_V 1.662 1.00
87_N 91_A 1.633 1.00
83_D 88_D 1.619 1.00
42_P 45_V 1.608 1.00
10_L 14_P 1.606 1.00
47_A 50_E 1.575 1.00
75_F 277_S 1.572 1.00
12_A 287_I 1.548 1.00
155_A 163_G 1.54 1.00
61_T 64_F 1.539 1.00
178_M 182_S 1.514 1.00
145_V 149_L 1.506 1.00
124_N 128_D 1.505 1.00
204_N 207_R 1.493 1.00
118_I 122_K 1.493 1.00
152_M 157_I 1.482 1.00
65_S 68_K 1.482 1.00
205_F 227_P 1.477 1.00
200_V 206_I 1.463 1.00
266_G 274_L 1.462 1.00
150_L 180_A 1.458 1.00
206_I 219_I 1.456 1.00
86_V 277_S 1.444 1.00
121_L 220_I 1.422 1.00
83_D 92_S 1.416 1.00
17_F 67_L 1.414 1.00
182_S 186_I 1.408 1.00
109_V 236_M 1.404 0.99
118_I 127_W 1.404 0.99
108_A 185_Y 1.391 0.99
120_A 197_M 1.377 0.99
153_I 157_I 1.372 0.99
127_W 131_V 1.37 0.99
111_L 186_I 1.367 0.99
117_V 197_M 1.366 0.99
84_Y 87_N 1.363 0.99
17_F 63_Y 1.359 0.99
263_F 278_L 1.356 0.99
138_G 187_A 1.353 0.99
116_G 193_T 1.338 0.99
200_V 228_A 1.337 0.99
54_H 57_D 1.334 0.99
96_V 99_K 1.333 0.99
112_G 189_I 1.328 0.99
161_L 176_L 1.327 0.99
262_L 274_L 1.313 0.99
120_A 198_I 1.305 0.99
212_K 223_H 1.301 0.99
35_F 46_M 1.301 0.99
58_P 61_T 1.299 0.99
131_V 190_A 1.297 0.99
21_T 59_I 1.284 0.99
214_L 218_R 1.282 0.99
122_K 127_W 1.282 0.99
89_L 274_L 1.281 0.99
65_S 69_Q 1.275 0.99
153_I 158_L 1.273 0.99
49_I 53_Y 1.265 0.99
141_I 146_V 1.264 0.99
278_L 282_V 1.257 0.99
6_L 10_L 1.247 0.99
12_A 291_A 1.246 0.98
54_H 65_S 1.213 0.98
230_L 297_Y 1.212 0.98
32_G 270_R 1.211 0.98
295_V 299_V 1.192 0.98
75_F 87_N 1.189 0.98
149_L 153_I 1.169 0.97
116_G 120_A 1.163 0.97
16_L 287_I 1.151 0.97
20_I 280_I 1.137 0.97
154_F 158_L 1.137 0.97
189_I 239_A 1.128 0.97
102_A 106_F 1.126 0.97
292_I 296_L 1.12 0.96
147_A 180_A 1.119 0.96
28_R 59_I 1.116 0.96
112_G 193_T 1.114 0.96
92_S 95_P 1.11 0.96
99_K 174_M 1.108 0.96
130_T 134_L 1.104 0.96
124_N 129_Y 1.104 0.96
150_L 176_L 1.1 0.96
4_F 8_R 1.099 0.96
120_A 201_L 1.097 0.96
119_A 131_V 1.095 0.96
171_L 175_I 1.089 0.96
175_I 179_V 1.087 0.96
166_W 169_G 1.082 0.96
49_I 52_K 1.081 0.95
143_S 250_I 1.078 0.95
107_L 178_M 1.073 0.95
105_F 236_M 1.07 0.95
192_I 235_Y 1.064 0.95
83_D 89_L 1.052 0.95
146_V 183_L 1.051 0.94
88_D 91_A 1.045 0.94
2_L 6_L 1.043 0.94
21_T 25_F 1.043 0.94
51_A 57_D 1.035 0.94
99_K 103_A 1.035 0.94
147_A 253_I 1.031 0.94
5_I 295_V 1.027 0.94
63_Y 67_L 1.025 0.93
214_L 219_I 1.025 0.93
247_S 250_I 1.025 0.93
57_D 60_M 1.023 0.93
33_S 36_T 1.022 0.93
78_S 271_D 1.017 0.93
200_V 224_A 1.007 0.93
194_R 198_I 1.004 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
3tuiA40.686399.90.696Contact Map0.74
3rlfF10.91599.80.724Contact Map0.562
2onkC40.859599.80.741Contact Map0.587
3d31C20.869399.80.75Contact Map0.574
3rlfG10.911899.60.775Contact Map0.432
3s82A20.284317.60.962Contact Map0.274
1p7lA40.28439.50.966Contact Map0.325
3arcI20.12427.40.968Contact Map0.7
3tdsE50.32036.70.968Contact Map0.277
2p02A10.26476.70.968Contact Map0.281
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.
Page generated in 0.0544 seconds.