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OPENSEQ.org
YPDF - Aminopeptidase YpdF
UniProt: P76524 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG14153
Length: 361 (355)
Sequences: 3480
Seq/Len: 9.80
YPDF
Paralog alert: 0.49 [within 20: 0.02] - ratio of genomes with paralogs
Cluster includes: AMPP MAP1 PEPQ YPDF
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
137_R 346_E 5.169 1.00
314_P 342_P 4.492 1.00
133_V 339_L 3.769 1.00
260_I 340_V 3.077 1.00
189_W 201_K 2.729 1.00
270_D 274_R 2.671 1.00
275_R 279_E 2.477 1.00
138_L 141_G 2.351 1.00
256_A 273_A 2.342 1.00
201_K 207_E 2.312 1.00
159_S 202_I 2.302 1.00
277_I 324_I 2.299 1.00
16_L 94_G 2.238 1.00
255_A 276_V 2.222 1.00
294_I 337_V 2.16 1.00
254_L 258_S 2.149 1.00
245_V 330_G 2.14 1.00
238_E 244_N 2.134 1.00
145_R 174_Q 2.12 1.00
265_R 268_Q 2.115 1.00
31_L 40_V 2.032 1.00
276_V 280_A 2.006 1.00
161_R 200_D 2.005 1.00
247_Q 251_Q 2.001 1.00
166_E 169_W 1.996 1.00
185_V 209_V 1.994 1.00
238_E 329_Q 1.964 1.00
10_W 13_A 1.959 1.00
136_I 317_L 1.948 1.00
267_Q 309_T 1.939 1.00
204_A 207_E 1.938 1.00
212_D 223_D 1.916 1.00
25_Q 297_E 1.914 1.00
127_I 313_Q 1.911 1.00
92_T 115_K 1.895 1.00
236_S 242_L 1.887 1.00
135_K 218_Q 1.846 1.00
12_K 44_R 1.84 1.00
203_V 230_V 1.817 1.00
251_Q 280_A 1.798 1.00
319_T 337_V 1.775 1.00
320_V 338_V 1.768 1.00
271_D 275_R 1.756 1.00
237_A 244_N 1.755 1.00
106_H 109_Q 1.752 1.00
149_H 170_F 1.752 1.00
248_I 280_A 1.749 1.00
212_D 335_E 1.735 1.00
168_E 172_R 1.712 1.00
7_L 30_H 1.712 1.00
223_D 335_E 1.705 1.00
148_E 152_R 1.666 1.00
163_I 203_V 1.635 1.00
130_P 134_E 1.589 1.00
134_E 138_L 1.587 1.00
269_V 272_A 1.569 1.00
7_L 42_I 1.565 1.00
187_S 201_K 1.532 1.00
216_L 221_C 1.514 1.00
4_L 8_R 1.507 1.00
169_W 173_Q 1.494 1.00
259_A 272_A 1.486 1.00
10_W 14_Q 1.486 1.00
341_T 346_E 1.484 1.00
250_L 254_L 1.479 1.00
293_A 302_P 1.476 1.00
159_S 162_E 1.467 1.00
166_E 170_F 1.449 1.00
9_D 13_A 1.444 1.00
248_I 277_I 1.433 1.00
312_L 318_L 1.43 1.00
256_A 269_V 1.425 1.00
208_F 229_L 1.42 1.00
304_F 318_L 1.418 1.00
312_L 340_V 1.414 0.99
43_S 48_H 1.408 0.99
265_R 311_T 1.399 0.99
20_L 41_V 1.395 0.99
264_V 272_A 1.377 0.99
275_R 278_T 1.375 0.99
170_F 174_Q 1.375 0.99
165_A 169_W 1.371 0.99
8_R 11_L 1.369 0.99
11_L 16_L 1.368 0.99
153_F 166_E 1.367 0.99
313_Q 316_M 1.366 0.99
245_V 326_L 1.365 0.99
249_V 332_V 1.351 0.99
8_R 43_S 1.346 0.99
123_V 313_Q 1.345 0.99
151_R 228_L 1.337 0.99
244_N 280_A 1.331 0.99
278_T 283_G 1.327 0.99
253_Q 257_I 1.327 0.99
144_D 351_M 1.327 0.99
255_A 258_S 1.32 0.99
166_E 173_Q 1.318 0.99
244_N 248_I 1.3 0.99
156_A 205_A 1.298 0.99
28_Q 296_I 1.285 0.99
248_I 324_I 1.282 0.99
186_A 191_G 1.281 0.99
133_V 137_R 1.279 0.99
163_I 185_V 1.274 0.99
126_Q 316_M 1.274 0.99
7_L 19_V 1.269 0.99
339_L 348_L 1.267 0.99
190_R 201_K 1.265 0.99
18_A 43_S 1.263 0.99
142_I 217_Y 1.255 0.99
326_L 329_Q 1.255 0.99
187_S 207_E 1.242 0.98
262_P 341_T 1.238 0.98
325_Y 331_G 1.237 0.98
246_Y 334_I 1.236 0.98
50_L 79_T 1.235 0.98
149_H 153_F 1.224 0.98
273_A 290_T 1.222 0.98
251_Q 255_A 1.22 0.98
268_Q 271_D 1.217 0.98
167_L 213_F 1.217 0.98
253_Q 336_D 1.213 0.98
245_V 282_Y 1.211 0.98
257_I 347_V 1.21 0.98
261_R 264_V 1.208 0.98
3_L 129_T 1.205 0.98
208_F 242_L 1.204 0.98
134_E 137_R 1.201 0.98
188_G 207_E 1.199 0.98
259_A 269_V 1.196 0.98
190_R 196_G 1.191 0.98
130_P 341_T 1.185 0.98
140_C 337_V 1.177 0.98
264_V 269_V 1.173 0.97
137_R 141_G 1.168 0.97
341_T 344_G 1.159 0.97
97_G 106_H 1.158 0.97
58_E 62_R 1.156 0.97
336_D 353_K 1.154 0.97
17_D 44_R 1.148 0.97
318_L 340_V 1.146 0.97
4_L 42_I 1.145 0.97
277_I 282_Y 1.141 0.97
253_Q 353_K 1.139 0.97
186_A 196_G 1.138 0.97
229_L 235_V 1.136 0.97
136_I 140_C 1.133 0.97
11_L 18_A 1.128 0.97
176_A 215_A 1.121 0.96
264_V 268_Q 1.12 0.96
149_H 174_Q 1.103 0.96
52_D 55_Y 1.101 0.96
229_L 242_L 1.1 0.96
245_V 332_V 1.094 0.96
293_A 300_E 1.085 0.95
270_D 290_T 1.083 0.95
140_C 144_D 1.079 0.95
180_S 221_C 1.079 0.95
195_H 299_H 1.079 0.95
18_A 41_V 1.078 0.95
137_R 339_L 1.075 0.95
182_D 197_K 1.074 0.95
248_I 251_Q 1.074 0.95
4_L 47_A 1.071 0.95
147_A 224_M 1.071 0.95
9_D 12_K 1.067 0.95
243_F 247_Q 1.066 0.95
267_Q 307_R 1.06 0.95
294_I 317_L 1.059 0.95
260_I 320_V 1.058 0.95
251_Q 279_E 1.051 0.94
225_T 335_E 1.05 0.94
138_L 217_Y 1.049 0.94
209_V 230_V 1.049 0.94
48_H 71_L 1.046 0.94
17_D 92_T 1.038 0.94
206_G 233_E 1.031 0.94
250_L 334_I 1.031 0.94
95_F 102_W 1.028 0.93
292_H 321_E 1.023 0.93
158_M 166_E 1.023 0.93
170_F 173_Q 1.017 0.93
224_M 337_V 1.016 0.93
325_Y 333_R 1.012 0.93
201_K 204_A 1.007 0.92
257_I 338_V 1.006 0.92
255_A 259_A 1.005 0.92
252_A 276_V 1.003 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
3q6dA40.96951000.137Contact Map0.828
2zsgA20.97231000.141Contact Map0.89
4fkcA10.96681000.149Contact Map0.765
4egeA10.97231000.163Contact Map0.746
1wn1A20.95291000.163Contact Map0.819
1wy2A20.94741000.177Contact Map0.852
1kp0A20.98061000.194Contact Map0.732
1chmA20.97781000.203Contact Map0.751
3ig4A60.97511000.218Contact Map0.714
4b28A10.96951000.22Contact Map0.706
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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