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OPENSEQ.org
XYLF - D-xylose-binding periplasmic protein
UniProt: P37387 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG20252
Length: 330 (287)
Sequences: 9122
Seq/Len: 31.78
XYLF
Paralog alert: 0.86 [within 20: 0.41] - ratio of genomes with paralogs
Cluster includes: ALSB ARAF ASCG CRA CYTR DGAL EBGR GALR GALS GNTR IDNR LACI LSRB MALI PURR RBSB RBSR TORT TRER XYLF YCJW YPHF YTFQ
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
130_E 170_K 3.815 1.00
84_V 278_A 3.213 1.00
146_Q 213_D 3.1 1.00
230_L 239_V 2.646 1.00
136_Q 242_S 2.599 1.00
138_K 142_D 2.517 1.00
50_K 53_S 2.464 1.00
280_E 285_Q 2.461 1.00
165_R 169_M 2.455 1.00
246_A 264_Y 2.441 1.00
134_E 170_K 2.396 1.00
46_I 271_A 2.384 1.00
198_L 232_A 2.285 1.00
273_T 276_E 2.278 1.00
201_M 215_V 2.267 1.00
134_E 174_P 2.211 1.00
140_L 214_A 2.21 1.00
50_K 276_E 2.156 1.00
146_Q 240_A 2.125 1.00
134_E 171_V 2.105 1.00
148_N 182_K 2.091 1.00
133_G 137_A 2.068 1.00
231_S 258_T 2.057 1.00
235_L 238_K 2.054 1.00
132_V 244_Q 2.028 1.00
123_F 281_L 1.994 1.00
134_E 138_K 1.956 1.00
49_K 268_T 1.941 1.00
51_A 275_A 1.918 1.00
50_K 272_N 1.893 1.00
29_G 82_V 1.87 1.00
130_E 166_A 1.85 1.00
29_G 77_M 1.843 1.00
197_A 225_G 1.803 1.00
206_T 233_Q 1.788 1.00
148_N 211_K 1.787 1.00
131_K 135_L 1.777 1.00
100_K 104_Q 1.762 1.00
202_E 233_Q 1.757 1.00
152_M 226_A 1.754 1.00
131_K 134_E 1.753 1.00
139_A 143_I 1.74 1.00
138_K 171_V 1.73 1.00
137_A 168_Q 1.729 1.00
202_E 229_A 1.696 1.00
279_V 283_N 1.677 1.00
198_L 229_A 1.667 1.00
141_V 178_S 1.637 1.00
166_A 170_K 1.63 1.00
266_P 269_L 1.629 1.00
128_D 131_K 1.621 1.00
27_K 57_K 1.61 1.00
75_E 101_E 1.606 1.00
30_M 47_F 1.602 1.00
269_L 272_N 1.6 1.00
191_G 196_N 1.596 1.00
276_E 280_E 1.593 1.00
150_F 212_I 1.559 1.00
50_K 275_A 1.555 1.00
137_A 141_V 1.555 1.00
133_G 216_V 1.544 1.00
242_S 261_M 1.533 1.00
150_F 204_A 1.521 1.00
139_A 142_D 1.514 1.00
61_Q 77_M 1.49 1.00
48_V 52_E 1.49 1.00
169_M 173_K 1.488 1.00
141_V 171_V 1.47 1.00
225_G 229_A 1.466 1.00
202_E 232_A 1.465 1.00
46_I 268_T 1.459 1.00
44_R 48_V 1.44 1.00
163_L 166_A 1.435 1.00
28_I 51_A 1.432 1.00
112_Y 274_A 1.426 1.00
229_A 233_Q 1.418 1.00
86_V 274_A 1.417 1.00
148_N 213_D 1.408 1.00
201_M 226_A 1.387 0.99
220_D 262_T 1.384 0.99
50_K 54_L 1.375 0.99
227_I 241_I 1.371 0.99
198_L 228_Q 1.369 0.99
217_A 226_A 1.369 0.99
54_L 279_V 1.368 0.99
51_A 58_V 1.366 0.99
130_E 134_E 1.359 0.99
138_K 174_P 1.348 0.99
167_G 171_V 1.338 0.99
195_E 199_K 1.334 0.99
243_G 262_T 1.32 0.99
198_L 202_E 1.317 0.99
137_A 167_G 1.316 0.99
47_F 275_A 1.312 0.99
138_K 178_S 1.306 0.99
78_I 107_I 1.285 0.99
135_L 138_K 1.285 0.99
230_L 235_L 1.279 0.99
255_A 316_K 1.278 0.99
230_L 241_I 1.271 0.99
133_G 167_G 1.267 0.99
269_L 273_T 1.26 0.99
139_A 261_M 1.256 0.99
199_K 203_N 1.238 0.98
252_K 256_A 1.232 0.98
151_L 218_S 1.231 0.98
201_M 230_L 1.228 0.98
47_F 271_A 1.226 0.98
137_A 171_V 1.211 0.98
168_Q 216_V 1.206 0.98
215_V 226_A 1.197 0.98
229_A 232_A 1.196 0.98
141_V 181_I 1.188 0.98
220_D 223_A 1.188 0.98
102_A 109_V 1.188 0.98
209_N 212_I 1.184 0.98
31_A 73_Q 1.166 0.97
146_Q 214_A 1.157 0.97
190_D 222_T 1.157 0.97
30_M 58_V 1.155 0.97
193_L 196_N 1.145 0.97
220_D 243_G 1.132 0.97
147_G 213_D 1.128 0.97
127_F 265_K 1.127 0.97
49_K 53_S 1.122 0.97
272_N 276_E 1.109 0.96
26_V 56_A 1.101 0.96
170_K 173_K 1.099 0.96
196_N 199_K 1.092 0.96
168_Q 172_L 1.09 0.96
170_K 174_P 1.086 0.96
154_G 192_W 1.086 0.96
84_V 282_G 1.077 0.95
130_E 163_L 1.062 0.95
47_F 86_V 1.061 0.95
143_I 240_A 1.059 0.95
45_D 48_V 1.055 0.95
264_Y 308_I 1.041 0.94
149_Y 214_A 1.03 0.94
196_N 200_I 1.03 0.94
148_N 184_V 1.028 0.94
166_A 169_M 1.023 0.93
54_L 276_E 1.023 0.93
61_Q 73_Q 1.013 0.93
49_K 272_N 1.01 0.93
136_Q 216_V 1.009 0.93
220_D 246_A 1.008 0.93
77_M 82_V 1.008 0.93
162_K 166_A 1.007 0.93
273_T 277_I 1.003 0.93
26_V 83_D 1.002 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
3m9wA10.91821000.268Contact Map0.723
3uugA20.92121000.277Contact Map0.697
4kzkA10.92421000.303Contact Map0.649
2driA10.81821000.31Contact Map0.751
3d02A10.89391000.311Contact Map0.63
4kvfA10.94241000.317Contact Map0.666
2rgyA10.86061000.318Contact Map0.729
2h3hA20.90611000.319Contact Map0.761
1tjyA10.88791000.322Contact Map0.661
2rjoA10.91211000.322Contact Map0.685
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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