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OPENSEQ.org
LYSP - Lysine-specific permease
UniProt: P25737 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG11337
Length: 489 (460)
Sequences: 9975
Seq/Len: 21.68
LYSP
Paralog alert: 0.81 [within 20: 0.37] - ratio of genomes with paralogs
Cluster includes: ADIC ANSP ARCD AROP CADB CYCA FRLA GABP GADC LYSP MMUP PHEP PLAP POTE PROY PUUP YBAT YCAM YGJI YIFK YJEH YJEM
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
335_I 347_N 4.073 1.00
387_L 425_F 3.718 1.00
142_F 353_T 3.347 1.00
174_G 259_I 3.255 1.00
327_A 337_A 3.188 1.00
18_K 232_E 3.073 1.00
135_A 360_F 2.935 1.00
395_R 399_G 2.931 1.00
59_G 250_L 2.924 1.00
236_K 240_R 2.873 1.00
338_K 347_N 2.86 1.00
390_A 424_A 2.687 1.00
233_D 236_K 2.667 1.00
295_S 299_V 2.624 1.00
422_I 426_I 2.571 1.00
330_G 334_R 2.502 1.00
350_Y 354_V 2.484 1.00
335_I 338_K 2.285 1.00
340_S 346_R 2.279 1.00
231_S 237_N 2.275 1.00
23_T 244_Q 2.209 1.00
229_G 328_C 2.184 1.00
60_L 423_F 2.183 1.00
324_Y 328_C 2.18 1.00
68_S 390_A 2.172 1.00
172_I 176_L 2.166 1.00
268_D 290_H 2.116 1.00
19_A 237_N 2.115 1.00
19_A 244_Q 2.1 1.00
99_G 326_L 2.098 1.00
87_Q 95_G 2.092 1.00
419_L 423_F 2.066 1.00
50_G 207_M 2.058 1.00
90_V 395_R 2.057 1.00
336_F 351_A 2.054 1.00
93_G 467_Y 2.054 1.00
18_K 21_H 2.049 1.00
13_L 339_L 2.039 1.00
87_Q 92_E 2.034 1.00
83_A 329_D 2.016 1.00
60_L 64_F 1.919 1.00
426_I 430_I 1.863 1.00
103_W 352_T 1.853 1.00
395_R 398_R 1.826 1.00
146_Y 350_Y 1.824 1.00
230_E 321_R 1.823 1.00
71_E 397_R 1.817 1.00
22_L 231_S 1.816 1.00
164_V 168_I 1.816 1.00
150_R 154_E 1.775 1.00
142_F 349_L 1.768 1.00
391_I 425_F 1.763 1.00
161_L 165_T 1.757 1.00
90_V 391_I 1.757 1.00
233_D 240_R 1.756 1.00
146_Y 346_R 1.736 1.00
416_F 420_G 1.727 1.00
56_M 254_V 1.723 1.00
42_T 51_A 1.715 1.00
68_S 421_P 1.707 1.00
240_R 244_Q 1.697 1.00
19_A 23_T 1.672 1.00
143_L 147_I 1.658 1.00
320_T 349_L 1.646 1.00
54_S 210_V 1.644 1.00
61_M 427_L 1.636 1.00
265_P 268_D 1.633 1.00
393_H 421_P 1.602 1.00
23_T 248_R 1.572 1.00
247_W 251_L 1.569 1.00
64_F 423_F 1.568 1.00
86_G 98_L 1.567 1.00
121_M 133_W 1.563 1.00
347_N 351_A 1.556 1.00
446_D 449_G 1.555 1.00
469_L 472_G 1.551 1.00
465_F 469_L 1.546 1.00
234_P 239_P 1.54 1.00
138_L 356_A 1.54 1.00
394_Y 422_I 1.532 1.00
233_D 237_N 1.527 1.00
340_S 344_V 1.52 1.00
21_H 157_Y 1.51 1.00
401_V 406_D 1.503 1.00
98_L 388_G 1.5 1.00
135_A 357_G 1.499 1.00
43_I 51_A 1.495 1.00
298_A 302_A 1.485 1.00
461_L 465_F 1.483 1.00
17_L 21_H 1.475 1.00
458_P 461_L 1.475 1.00
243_R 247_W 1.475 1.00
334_R 337_A 1.453 1.00
323_L 348_A 1.451 1.00
425_F 429_L 1.451 1.00
319_S 352_T 1.442 1.00
462_I 466_G 1.431 1.00
165_T 169_V 1.424 1.00
171_I 255_F 1.423 1.00
89_Y 392_S 1.406 0.99
464_W 468_K 1.405 0.99
17_L 153_G 1.4 0.99
286_L 289_Q 1.399 0.99
86_G 388_G 1.392 0.99
79_S 229_G 1.387 0.99
90_V 94_F 1.385 0.99
96_F 100_W 1.385 0.99
176_L 181_I 1.385 0.99
74_A 411_P 1.381 0.99
286_L 290_H 1.379 0.99
200_F 207_M 1.374 0.99
110_I 356_A 1.371 0.99
334_R 338_K 1.367 0.99
467_Y 471_K 1.363 0.99
91_E 468_K 1.357 0.99
227_A 317_Y 1.34 0.99
418_P 422_I 1.339 0.99
166_T 303_V 1.336 0.99
76_M 88_N 1.331 0.99
27_I 248_R 1.314 0.99
175_V 179_I 1.314 0.99
65_L 390_A 1.31 0.99
91_E 94_F 1.302 0.99
19_A 240_R 1.301 0.99
235_A 411_P 1.29 0.99
52_L 258_L 1.289 0.99
237_N 240_R 1.284 0.99
433_L 437_Y 1.278 0.99
391_I 395_R 1.274 0.99
58_I 214_V 1.272 0.99
66_M 242_V 1.271 0.99
387_L 391_I 1.269 0.99
147_I 342_G 1.266 0.99
139_G 357_G 1.265 0.99
17_L 22_L 1.264 0.99
342_G 346_R 1.26 0.99
42_T 46_A 1.259 0.99
354_V 358_L 1.256 0.99
14_R 343_G 1.247 0.99
30_S 249_I 1.247 0.99
323_L 332_A 1.246 0.98
141_I 312_G 1.245 0.98
134_S 360_F 1.243 0.98
26_A 245_V 1.238 0.98
347_N 350_Y 1.234 0.98
135_A 139_G 1.234 0.98
139_G 353_T 1.223 0.98
128_T 132_I 1.214 0.98
73_A 85_Y 1.209 0.98
394_Y 418_P 1.203 0.98
146_Y 344_V 1.203 0.98
145_N 313_N 1.199 0.98
131_W 135_A 1.196 0.98
66_M 246_F 1.196 0.98
53_L 207_M 1.194 0.98
146_Y 340_S 1.192 0.98
64_F 420_G 1.188 0.98
175_V 259_I 1.182 0.98
454_Y 458_P 1.179 0.98
20_R 154_E 1.178 0.98
155_A 159_F 1.177 0.98
208_I 430_I 1.176 0.98
174_G 263_I 1.171 0.98
387_L 429_L 1.171 0.98
142_F 350_Y 1.17 0.97
251_L 255_F 1.169 0.97
339_L 343_G 1.167 0.97
338_K 346_R 1.164 0.97
56_M 60_L 1.161 0.97
328_C 337_A 1.151 0.97
20_R 24_M 1.151 0.97
83_A 325_T 1.15 0.97
405_H 409_D 1.147 0.97
289_Q 297_A 1.144 0.97
142_F 146_Y 1.14 0.97
138_L 353_T 1.137 0.97
222_E 226_I 1.135 0.97
228_A 238_I 1.134 0.97
114_L 138_L 1.13 0.97
100_W 332_A 1.13 0.97
186_Q 191_S 1.128 0.97
255_F 259_I 1.127 0.97
140_V 309_L 1.123 0.97
219_Q 382_G 1.122 0.97
179_I 187_P 1.118 0.96
183_K 186_Q 1.115 0.96
18_K 150_R 1.104 0.96
416_F 419_L 1.104 0.96
394_Y 421_P 1.104 0.96
86_G 94_F 1.098 0.96
149_V 317_Y 1.095 0.96
143_L 146_Y 1.094 0.96
419_L 422_I 1.089 0.96
22_L 241_A 1.081 0.95
53_L 56_M 1.08 0.95
265_P 290_H 1.078 0.95
13_L 324_Y 1.076 0.95
84_T 88_N 1.075 0.95
466_G 470_I 1.073 0.95
75_Y 411_P 1.073 0.95
117_A 305_L 1.072 0.95
154_E 157_Y 1.069 0.95
37_V 116_A 1.069 0.95
78_V 84_T 1.065 0.95
263_I 287_V 1.063 0.95
21_H 154_E 1.062 0.95
75_Y 410_L 1.057 0.95
324_Y 339_L 1.051 0.94
455_I 458_P 1.051 0.94
289_Q 294_L 1.049 0.94
390_A 425_F 1.048 0.94
141_I 313_N 1.046 0.94
407_I 410_L 1.045 0.94
114_L 312_G 1.045 0.94
68_S 414_S 1.042 0.94
457_I 461_L 1.041 0.94
418_P 421_P 1.038 0.94
178_I 262_L 1.028 0.94
316_M 320_T 1.02 0.93
340_S 343_G 1.02 0.93
170_F 288_F 1.019 0.93
50_G 200_F 1.019 0.93
67_T 243_R 1.015 0.93
465_F 468_K 1.015 0.93
69_L 82_F 1.014 0.93
67_T 415_G 1.014 0.93
362_T 366_G 1.01 0.93
393_H 397_R 1.009 0.93
468_K 473_T 1.003 0.93
430_I 434_G 1 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
4djkA20.94071000.358Contact Map0.597
3l1lA10.89781000.4Contact Map0.681
3giaA10.88551000.412Contact Map0.591
3dh4A40.928498.50.892Contact Map0.388
2xq2A10.928498.10.902Contact Map0.484
2jlnA10.867197.80.91Contact Map0.42
4m48A10.934696.50.927Contact Map0.326
2a65A10.912192.80.941Contact Map0.41
2kluA10.104316.20.97Contact Map0.176
4ainA30.175912.30.971Contact Map0.555
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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