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OPENSEQ.org
YBIR - Inner membrane protein YbiR
UniProt: P75788 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13323
Length: 372 (358)
Sequences: 4161
Seq/Len: 11.62
YBIR
Paralog alert: 0.72 [within 20: 0.07] - ratio of genomes with paralogs
Cluster includes: ARSB CITT TTDT YBHI YBIR YFJV
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
32_A 35_S 3.798 1.00
269_Q 273_G 3.637 1.00
35_S 264_Q 3.263 1.00
60_L 239_R 3.222 1.00
124_I 334_A 2.704 1.00
155_S 158_G 2.457 1.00
89_A 105_V 2.412 1.00
49_S 249_L 2.371 1.00
139_P 149_W 2.369 1.00
70_K 74_R 2.278 1.00
91_L 95_F 2.256 1.00
209_L 233_F 2.17 1.00
345_W 349_L 2.144 1.00
125_I 129_L 2.134 1.00
70_K 73_R 2.089 1.00
121_N 346_R 2.08 1.00
204_W 208_G 2.048 1.00
346_R 349_L 2.044 1.00
157_A 161_A 2.005 1.00
57_G 234_A 2.001 1.00
213_F 230_A 1.984 1.00
341_R 345_W 1.973 1.00
97_T 100_V 1.955 1.00
85_M 109_T 1.936 1.00
160_I 164_A 1.929 1.00
325_L 335_L 1.857 1.00
292_Q 355_L 1.824 1.00
180_C 183_P 1.821 1.00
109_T 127_E 1.771 1.00
356_L 360_L 1.764 1.00
274_N 278_L 1.725 1.00
86_V 130_A 1.721 1.00
56_K 59_E 1.695 1.00
57_G 206_C 1.694 1.00
49_S 53_L 1.687 1.00
176_L 180_C 1.674 1.00
83_M 175_L 1.658 1.00
270_G 274_N 1.652 1.00
77_T 80_R 1.629 1.00
93_S 134_G 1.616 1.00
66_V 70_K 1.611 1.00
97_T 101_A 1.609 1.00
341_R 346_R 1.603 1.00
288_I 355_L 1.602 1.00
90_A 167_A 1.577 1.00
128_A 334_A 1.575 1.00
135_S 142_N 1.575 1.00
312_L 316_A 1.571 1.00
348_H 352_I 1.57 1.00
137_L 164_A 1.57 1.00
133_A 170_M 1.567 1.00
75_F 84_F 1.557 1.00
79_R 179_W 1.533 1.00
212_V 216_A 1.524 1.00
40_I 253_M 1.524 1.00
173_T 361_V 1.511 1.00
140_I 156_F 1.501 1.00
207_L 211_I 1.501 1.00
158_G 161_A 1.497 1.00
287_A 303_L 1.494 1.00
209_L 230_A 1.481 1.00
137_L 167_A 1.475 1.00
89_A 131_V 1.46 1.00
345_W 348_H 1.453 1.00
291_S 296_N 1.445 1.00
262_L 267_A 1.435 1.00
273_G 276_S 1.407 0.99
168_G 172_L 1.405 0.99
158_G 311_L 1.403 0.99
360_L 364_V 1.402 0.99
161_A 165_P 1.395 0.99
285_L 359_A 1.391 0.99
53_L 231_A 1.384 0.99
323_G 355_L 1.378 0.99
76_A 80_R 1.36 0.99
173_T 357_W 1.354 0.99
252_F 297_V 1.331 0.99
65_D 69_R 1.326 0.99
289_G 293_V 1.323 0.99
134_G 141_G 1.311 0.99
170_M 358_A 1.311 0.99
134_G 171_M 1.304 0.99
166_L 361_V 1.295 0.99
66_V 69_R 1.289 0.99
99_D 142_N 1.282 0.99
144_Q 328_S 1.282 0.99
144_Q 297_V 1.278 0.99
273_G 277_H 1.275 0.99
200_P 204_W 1.26 0.99
238_R 241_V 1.256 0.99
93_S 98_N 1.255 0.99
208_G 212_V 1.254 0.99
147_L 304_L 1.243 0.98
176_L 179_W 1.242 0.98
323_G 352_I 1.239 0.98
260_H 264_Q 1.225 0.98
290_L 299_S 1.224 0.98
133_A 174_L 1.223 0.98
128_A 331_N 1.212 0.98
263_T 269_Q 1.212 0.98
185_K 204_W 1.211 0.98
352_I 356_L 1.208 0.98
22_G 37_P 1.208 0.98
284_W 316_A 1.206 0.98
289_G 352_I 1.2 0.98
61_S 206_C 1.2 0.98
134_G 138_T 1.199 0.98
238_R 242_L 1.197 0.98
211_I 215_T 1.197 0.98
66_V 203_V 1.192 0.98
60_L 240_V 1.181 0.98
144_Q 318_N 1.177 0.98
23_I 232_G 1.17 0.97
48_L 297_V 1.164 0.97
201_R 204_W 1.163 0.97
143_P 297_V 1.161 0.97
212_V 233_F 1.16 0.97
130_A 134_G 1.157 0.97
135_S 141_G 1.154 0.97
138_T 141_G 1.15 0.97
98_N 135_S 1.146 0.97
292_Q 323_G 1.144 0.97
124_I 127_E 1.131 0.97
165_P 168_G 1.127 0.97
26_S 36_W 1.124 0.97
202_L 205_S 1.124 0.97
28_F 31_F 1.124 0.97
346_R 350_Y 1.121 0.97
87_L 91_L 1.115 0.96
49_S 244_V 1.111 0.96
285_L 289_G 1.107 0.96
50_G 231_A 1.107 0.96
322_F 331_N 1.103 0.96
101_A 131_V 1.098 0.96
177_L 180_C 1.095 0.96
88_A 105_V 1.087 0.96
214_L 219_F 1.083 0.96
106_V 124_I 1.081 0.95
54_L 213_F 1.078 0.95
307_V 317_V 1.075 0.95
216_A 229_V 1.073 0.95
98_N 101_A 1.07 0.95
343_I 346_R 1.069 0.95
262_L 268_L 1.069 0.95
82_A 123_L 1.061 0.95
35_S 38_A 1.058 0.95
148_I 314_V 1.052 0.95
254_A 258_D 1.048 0.94
325_L 332_L 1.047 0.94
48_L 252_F 1.044 0.94
79_R 175_L 1.044 0.94
86_V 174_L 1.042 0.94
56_K 244_V 1.041 0.94
199_K 203_V 1.039 0.94
213_F 217_L 1.032 0.94
47_T 98_N 1.026 0.94
239_R 242_L 1.026 0.94
56_K 243_S 1.025 0.93
68_G 112_L 1.023 0.93
177_L 357_W 1.019 0.93
59_E 243_S 1.019 0.93
296_N 327_G 1.017 0.93
169_A 361_V 1.016 0.93
86_V 171_M 1.014 0.93
42_W 150_G 1.014 0.93
105_V 127_E 1.012 0.93
291_S 321_G 1.009 0.93
93_S 135_S 1.007 0.93
252_F 321_G 1.006 0.93
208_G 211_I 1.005 0.93
274_N 277_H 1.004 0.93
177_L 354_M 1.001 0.92
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
4f35D40.98921000.431Contact Map0.657
1pi7A10.09681.60.975Contact Map0.689
2cfqA10.49461.40.976Contact Map0.235
2kncA10.13711.40.976Contact Map0.596
2rddB10.096810.978Contact Map0.3
4apsA20.50.90.979Contact Map0.144
1wazA10.11290.80.98Contact Map0.088
2k1aA10.11020.70.98Contact Map0.655
4b19A10.08060.70.98Contact Map0.3
2j5dA20.11020.70.98Contact Map0.785
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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