May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
YDCS - Putative ABC transporter periplasmic-binding protein YdcS
UniProt: P76108 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13762
Length: 381 (358)
Sequences: 3270
Seq/Len: 9.13
YDCS
Paralog alert: 0.67 [within 20: 0.04] - ratio of genomes with paralogs
Cluster includes: CYSP MALE MODA POTD POTF SUBI THIB UGPB YCJN YDCS YNJB
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
153_T 272_A 4.542 1.00
223_K 227_A 4.254 1.00
154_K 270_P 4.06 1.00
64_T 301_K 3.829 1.00
35_R 67_A 3.731 1.00
108_Q 296_P 3.656 1.00
66_C 298_C 3.51 1.00
37_D 69_N 3.508 1.00
226_R 230_S 3.503 1.00
35_R 69_N 3.192 1.00
151_Y 272_A 3.086 1.00
168_V 177_S 3.006 1.00
59_Q 62_K 2.919 1.00
59_Q 305_W 2.907 1.00
55_D 58_T 2.898 1.00
295_H 298_C 2.853 1.00
61_E 67_A 2.825 1.00
60_F 301_K 2.775 1.00
54_Y 58_T 2.701 1.00
120_T 327_E 2.683 1.00
58_T 62_K 2.676 1.00
60_F 66_C 2.588 1.00
57_V 302_W 2.495 1.00
301_K 304_N 2.433 1.00
162_S 165_V 2.346 1.00
89_D 295_H 2.32 1.00
109_P 136_K 2.294 1.00
156_F 253_A 2.239 1.00
297_V 301_K 2.175 1.00
313_G 317_A 2.15 1.00
308_T 311_V 2.083 1.00
176_K 231_L 2.079 1.00
305_W 311_V 2.078 1.00
139_G 286_T 2.074 1.00
165_V 168_V 2.074 1.00
58_T 61_E 1.999 1.00
216_E 220_A 1.991 1.00
155_T 252_V 1.915 1.00
160_P 165_V 1.873 1.00
91_V 290_H 1.861 1.00
224_V 227_A 1.834 1.00
154_K 158_T 1.827 1.00
108_Q 291_S 1.8 1.00
293_A 296_P 1.799 1.00
167_F 228_Q 1.794 1.00
61_E 64_T 1.75 1.00
107_V 288_M 1.739 1.00
57_V 61_E 1.723 1.00
33_E 67_A 1.706 1.00
89_D 293_A 1.694 1.00
161_D 165_V 1.694 1.00
90_L 303_M 1.68 1.00
220_A 223_K 1.641 1.00
238_D 241_V 1.62 1.00
117_N 304_N 1.612 1.00
59_Q 314_D 1.607 1.00
155_T 158_T 1.598 1.00
289_L 300_Y 1.595 1.00
302_W 306_S 1.593 1.00
167_F 227_A 1.575 1.00
66_C 301_K 1.565 1.00
153_T 157_P 1.561 1.00
164_Q 168_V 1.531 1.00
109_P 137_V 1.529 1.00
57_V 70_V 1.515 1.00
16_T 19_T 1.508 1.00
168_V 176_K 1.503 1.00
74_A 78_E 1.485 1.00
170_Q 253_A 1.466 1.00
156_F 178_N 1.447 1.00
55_D 314_D 1.446 1.00
298_C 301_K 1.432 0.99
291_S 296_P 1.427 0.99
60_F 305_W 1.419 0.99
309_P 313_G 1.408 0.99
148_L 273_T 1.402 0.99
19_T 22_A 1.402 0.99
105_K 291_S 1.391 0.99
63_E 308_T 1.39 0.99
161_D 277_K 1.39 0.99
289_L 303_M 1.364 0.99
38_I 90_L 1.359 0.99
167_F 224_V 1.333 0.99
149_L 274_V 1.314 0.99
57_V 68_V 1.313 0.99
60_F 64_T 1.305 0.99
36_L 298_C 1.301 0.99
61_E 65_G 1.3 0.99
108_Q 293_A 1.288 0.99
13_L 16_T 1.275 0.98
224_V 228_Q 1.267 0.98
178_N 252_V 1.262 0.98
55_D 59_Q 1.254 0.98
132_N 137_V 1.247 0.98
169_E 177_S 1.243 0.98
167_F 176_K 1.229 0.98
217_Q 220_A 1.228 0.98
219_Q 223_K 1.221 0.98
155_T 178_N 1.211 0.98
113_A 300_Y 1.209 0.98
56_W 311_V 1.204 0.98
227_A 231_L 1.192 0.97
139_G 288_M 1.189 0.97
337_E 341_E 1.187 0.97
90_L 299_A 1.186 0.97
151_Y 159_P 1.182 0.97
242_Q 254_S 1.176 0.97
123_P 127_K 1.174 0.97
111_N 136_K 1.171 0.97
59_Q 63_E 1.166 0.97
179_K 183_Q 1.153 0.97
40_A 70_V 1.151 0.97
151_Y 274_V 1.141 0.96
164_Q 167_F 1.139 0.96
34_G 298_C 1.139 0.96
121_L 307_L 1.138 0.96
80_V 84_T 1.131 0.96
296_P 300_Y 1.13 0.96
15_M 18_M 1.116 0.96
152_N 155_T 1.114 0.96
102_I 107_V 1.113 0.96
245_D 250_G 1.109 0.96
60_F 298_C 1.107 0.95
22_A 25_P 1.106 0.95
115_I 304_N 1.105 0.95
102_I 138_Y 1.1 0.95
178_N 253_A 1.097 0.95
154_K 269_Q 1.089 0.95
347_Y 350_K 1.08 0.95
290_H 293_A 1.078 0.95
34_G 295_H 1.076 0.94
287_T 303_M 1.069 0.94
41_W 76_S 1.059 0.94
33_E 65_G 1.05 0.93
78_E 81_S 1.048 0.93
18_M 22_A 1.047 0.93
60_F 302_W 1.047 0.93
348_F 351_I 1.043 0.93
313_G 328_G 1.036 0.93
154_K 157_P 1.032 0.93
122_D 326_P 1.015 0.92
183_Q 251_V 1.006 0.91
314_D 318_W 1.004 0.91
223_K 226_R 1.003 0.91
304_N 308_T 1.003 0.91
337_E 349_D 1.001 0.91
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
4eqbA20.84511000.296Contact Map0.766
4edpA20.88981000.297Contact Map0.757
4gl0A10.85041000.302Contact Map0.745
1potA10.82941000.313Contact Map0.718
2v84A10.87931000.326Contact Map0.722
3ttmA20.84511000.329Contact Map0.76
3rpwA10.88711000.336Contact Map0.693
4jdfA10.85041000.338Contact Map0.667
3ttnA20.8321000.342Contact Map0.705
4i1dA40.82681000.358Contact Map0.666
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 0.1135 seconds.