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OPENSEQ.org
YJCD - Putative permease YjcD
UniProt: P0AF52 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG11939
Length: 449 (431)
Sequences: 1455
Seq/Len: 3.38
YJCD
Paralog alert: 0.45 [within 20: 0.02] - ratio of genomes with paralogs
Cluster includes: PURP YGFQ YICO YJCD
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
18_I 23_S 3.8 1.00
76_G 338_I 3.691 1.00
167_N 175_A 3.672 1.00
17_K 20_Q 3.627 1.00
71_G 305_S 3.372 1.00
279_V 327_T 3.241 1.00
416_V 436_A 3.117 1.00
25_V 335_L 3.093 1.00
52_K 97_F 3.016 1.00
331_G 336_T 2.974 1.00
29_V 339_T 2.955 1.00
18_I 335_L 2.85 1.00
13_D 19_S 2.845 1.00
73_I 341_G 2.834 1.00
31_A 331_G 2.736 1.00
424_E 427_K 2.634 1.00
393_V 414_T 2.613 1.00
119_V 123_V 2.513 1.00
18_I 25_V 2.444 1.00
83_L 319_V 2.413 1.00
69_G 345_L 2.344 1.00
247_L 311_L 2.325 1.00
84_A 340_V 2.297 1.00
287_D 291_Q 2.262 1.00
206_I 365_A 2.261 1.00
189_V 216_V 2.228 1.00
43_V 65_C 2.211 1.00
161_V 187_S 2.193 1.00
342_V 346_L 2.14 1.00
419_R 427_K 2.101 1.00
428_L 433_V 2.093 1.00
191_L 367_M 2.086 1.00
31_A 336_T 2.073 1.00
21_R 333_T 2.065 1.00
24_T 27_Q 2.065 1.00
29_V 33_L 2.04 1.00
72_S 341_G 1.999 1.00
377_V 395_A 1.99 1.00
112_G 249_I 1.97 1.00
17_K 80_N 1.962 1.00
186_M 213_I 1.952 1.00
198_E 372_L 1.922 1.00
230_F 350_L 1.92 1.00
73_I 338_I 1.919 1.00
108_P 246_S 1.904 1.00
159_N 173_P 1.902 1.00
155_L 400_L 1.887 1.00
99_L 264_L 1.849 0.99
194_I 209_T 1.837 0.99
195_I 389_M 1.834 0.99
73_I 77_L 1.817 0.99
385_F 389_M 1.807 0.99
69_G 73_I 1.778 0.99
339_T 342_V 1.742 0.99
208_L 212_G 1.737 0.99
157_A 367_M 1.727 0.99
43_V 347_I 1.705 0.99
81_L 292_I 1.678 0.99
89_I 92_T 1.678 0.99
140_G 387_D 1.678 0.99
245_G 311_L 1.67 0.99
190_G 213_I 1.666 0.99
193_V 212_G 1.648 0.98
425_W 433_V 1.631 0.98
155_L 174_V 1.625 0.98
131_S 135_R 1.622 0.98
70_L 312_V 1.621 0.98
159_N 402_C 1.614 0.98
15_W 80_N 1.586 0.98
29_V 343_L 1.568 0.98
196_G 421_V 1.562 0.97
166_K 173_P 1.56 0.97
44_I 355_Y 1.551 0.97
74_V 78_W 1.549 0.97
197_L 202_V 1.531 0.97
425_W 428_L 1.529 0.97
197_L 208_L 1.529 0.97
380_I 388_A 1.523 0.97
27_Q 31_A 1.52 0.97
164_V 401_T 1.518 0.97
13_D 18_I 1.512 0.97
281_G 379_K 1.5 0.97
358_P 361_A 1.489 0.96
12_L 25_V 1.475 0.96
112_G 252_A 1.473 0.96
420_L 425_W 1.473 0.96
46_V 92_T 1.472 0.96
189_V 193_V 1.469 0.96
18_I 80_N 1.46 0.96
52_K 96_A 1.455 0.96
122_T 307_V 1.448 0.96
249_I 252_A 1.435 0.95
340_V 347_I 1.402 0.94
55_F 107_V 1.397 0.94
12_L 15_W 1.391 0.94
420_L 433_V 1.387 0.94
69_G 341_G 1.383 0.94
396_V 400_L 1.38 0.94
394_T 411_G 1.379 0.94
70_L 308_F 1.378 0.94
51_G 57_P 1.377 0.94
335_L 338_I 1.374 0.94
42_S 46_V 1.372 0.94
215_I 219_I 1.369 0.93
268_A 316_P 1.366 0.93
282_Q 328_A 1.363 0.93
68_A 86_G 1.36 0.93
74_V 301_T 1.355 0.93
195_I 418_G 1.349 0.93
194_I 368_Y 1.345 0.93
196_G 417_I 1.342 0.93
386_V 422_S 1.341 0.93
417_I 421_V 1.333 0.92
386_V 419_R 1.331 0.92
186_M 217_G 1.32 0.92
294_D 297_K 1.303 0.91
33_L 343_L 1.302 0.91
29_V 342_V 1.3 0.91
178_D 181_T 1.298 0.91
286_L 292_I 1.296 0.91
214_S 357_V 1.29 0.91
67_V 317_A 1.287 0.90
88_A 318_A 1.281 0.90
106_S 109_V 1.278 0.90
65_C 69_G 1.272 0.90
387_D 419_R 1.27 0.90
53_A 60_V 1.266 0.89
115_F 247_L 1.265 0.89
272_A 319_V 1.26 0.89
194_I 198_E 1.258 0.89
429_N 433_V 1.257 0.89
307_V 310_G 1.252 0.89
378_A 383_A 1.25 0.89
185_I 189_V 1.248 0.88
117_M 268_A 1.233 0.88
248_D 251_G 1.233 0.88
29_V 335_L 1.23 0.88
285_L 319_V 1.222 0.87
196_G 422_S 1.217 0.87
198_E 205_G 1.215 0.87
216_V 220_F 1.213 0.87
198_E 368_Y 1.207 0.86
39_M 84_A 1.197 0.86
199_K 389_M 1.196 0.85
192_A 417_I 1.196 0.85
193_V 216_V 1.193 0.85
15_W 77_L 1.192 0.85
46_V 64_T 1.188 0.85
190_G 364_P 1.185 0.85
130_R 302_D 1.176 0.84
155_L 159_N 1.173 0.84
13_D 25_V 1.163 0.83
13_D 335_L 1.163 0.83
306_S 316_P 1.16 0.83
81_L 294_D 1.158 0.83
122_T 303_S 1.148 0.82
370_G 392_L 1.144 0.82
119_V 307_V 1.133 0.81
158_A 367_M 1.129 0.81
144_G 380_I 1.128 0.81
203_P 329_A 1.123 0.80
76_G 341_G 1.121 0.80
44_I 357_V 1.117 0.80
194_I 206_I 1.117 0.80
186_M 216_V 1.11 0.79
46_V 49_M 1.109 0.79
125_S 300_T 1.099 0.78
55_F 60_V 1.098 0.78
168_P 171_G 1.097 0.78
416_V 428_L 1.094 0.78
303_S 307_V 1.087 0.77
122_T 300_T 1.079 0.76
11_S 15_W 1.076 0.76
199_K 385_F 1.074 0.76
288_K 291_Q 1.067 0.75
397_F 410_I 1.057 0.74
147_I 377_V 1.051 0.74
248_D 252_A 1.046 0.73
72_S 338_I 1.045 0.73
154_L 392_L 1.045 0.73
214_S 356_L 1.044 0.73
81_L 298_A 1.043 0.73
39_M 320_Y 1.043 0.73
21_R 294_D 1.038 0.72
393_V 410_I 1.034 0.72
27_Q 203_P 1.031 0.72
98_S 102_G 1.027 0.71
145_T 266_M 1.026 0.71
96_A 101_L 1.025 0.71
83_L 285_L 1.024 0.71
124_I 265_V 1.022 0.71
239_N 242_S 1.021 0.71
210_I 361_A 1.02 0.70
268_A 306_S 1.02 0.70
419_R 424_E 1.01 0.69
131_S 296_G 1.005 0.69
154_L 396_V 1 0.68
276_I 298_A 1 0.68
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
3qe7A10.87311000.676Contact Map0.397
3o7qA10.42323.10.987Contact Map0.385
2gfpA20.42322.90.987Contact Map0.147
4jr9A10.43882.60.988Contact Map0.285
3zx7A10.14922.30.988Contact Map0
2j5aA10.08242.20.988Contact Map0.105
2k9pA10.15142.20.988Contact Map0.07
2ls3A10.06242.10.988Contact Map1
2ltmA10.104720.988Contact Map0.375
2l2lB10.071320.989Contact Map0.541
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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