May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
YDFJ - Putative inner membrane metabolite transport protein YdfJ
UniProt: P77228 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13822
Length: 427 (387)
Sequences: 53307
Seq/Len: 137.74
YDFJ
Paralog alert: 0.90 [within 20: 0.58] - ratio of genomes with paralogs
Cluster includes: AMPG ARAE ARAJ BCR CYNX DGOT DTPA DTPB DTPD EMRB EMRD EMRY ENTS EXUT FSR FUCP GALP GARP GLPT GUDP HCAT HSRA KGTP LACY LPLT MDFA MDTD MDTG MDTH MDTL MDTM MELB MHPT NANT NARK NARU NEPI NUPG PROP RHMT SETA SETB SETC SHIA SOTB TSGA UHPC UHPT UIDB XAPB XYLE YAAU YAGG YAJR YBJJ YCAD YDEE YDFJ YDHC YDHP YDIM YDIN YDJE YDJK YEAN YEBQ YEGT YFCJ YGAY YGCS YHHS YHJE YHJX YICJ YIHN YIHO YIHP YJDL YJHB YJIJ YJJL YNFM YQCE
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
80_P 84_Q 4.304 1.00
68_M 103_G 3.807 1.00
75_L 96_L 3.543 1.00
77_G 168_L 3.394 1.00
83_A 95_T 3.103 1.00
41_A 98_I 3.06 1.00
70_G 174_M 3.057 1.00
72_C 96_L 3.018 1.00
49_F 106_A 2.97 1.00
81_T 84_Q 2.722 1.00
82_Y 94_V 2.608 1.00
125_G 274_D 2.599 1.00
337_F 345_R 2.586 1.00
247_N 250_I 2.557 1.00
65_T 106_A 2.521 1.00
58_R 117_E 2.52 1.00
22_S 25_A 2.515 1.00
119_A 127_I 2.511 1.00
72_C 99_I 2.445 1.00
45_G 102_L 2.373 1.00
72_C 103_G 2.34 1.00
123_K 126_I 2.332 1.00
54_D 343_F 2.263 1.00
338_G 341_N 2.147 1.00
120_P 123_K 2.127 1.00
207_G 211_Q 2.101 1.00
261_L 316_V 2.09 1.00
59_K 63_F 2.086 1.00
227_G 361_G 2.072 1.00
278_R 335_E 2.035 1.00
79_L 96_L 1.997 1.00
380_I 384_A 1.979 1.00
74_T 171_V 1.933 1.00
288_S 321_A 1.931 1.00
51_K 55_R 1.898 1.00
223_F 357_A 1.897 1.00
161_W 165_I 1.882 1.00
45_G 105_G 1.864 1.00
72_C 100_Q 1.855 1.00
79_L 84_Q 1.855 1.00
265_T 320_C 1.832 1.00
53_G 110_G 1.813 1.00
37_A 94_V 1.785 1.00
25_A 82_Y 1.774 1.00
29_I 93_L 1.742 1.00
277_G 280_I 1.713 1.00
21_E 25_A 1.685 1.00
309_T 313_A 1.684 1.00
52_M 61_V 1.683 1.00
290_I 387_V 1.683 1.00
271_W 275_K 1.68 1.00
63_F 181_R 1.669 1.00
290_I 390_L 1.657 1.00
21_E 82_Y 1.656 1.00
231_L 365_A 1.645 1.00
37_A 98_I 1.637 1.00
41_A 45_G 1.623 1.00
57_G 60_K 1.608 1.00
56_I 61_V 1.578 1.00
261_L 265_T 1.57 1.00
76_I 96_L 1.562 1.00
208_S 211_Q 1.553 1.00
292_L 314_L 1.529 1.00
60_K 64_I 1.529 1.00
75_L 78_V 1.529 1.00
68_M 72_C 1.515 1.00
77_G 171_V 1.491 1.00
45_G 48_I 1.479 1.00
56_I 60_K 1.474 1.00
126_I 274_D 1.472 1.00
74_T 78_V 1.469 1.00
76_I 93_L 1.464 1.00
52_M 56_I 1.458 1.00
285_M 324_G 1.453 1.00
70_G 171_V 1.429 1.00
16_E 19_F 1.425 1.00
270_G 274_D 1.424 1.00
50_G 54_D 1.422 1.00
179_W 183_N 1.419 1.00
95_T 99_I 1.418 1.00
64_I 68_M 1.409 1.00
40_V 359_G 1.405 0.99
213_K 217_L 1.395 0.99
239_Y 244_L 1.383 0.99
168_L 172_V 1.381 0.99
258_S 319_N 1.38 0.99
84_Q 96_L 1.378 0.99
246_F 250_I 1.369 0.99
60_K 63_F 1.366 0.99
208_S 341_N 1.361 0.99
162_G 165_I 1.361 0.99
121_K 124_R 1.358 0.99
367_I 371_M 1.342 0.99
283_I 390_L 1.34 0.99
357_A 361_G 1.329 0.99
219_T 352_I 1.32 0.99
115_L 131_V 1.309 0.99
65_T 103_G 1.307 0.99
272_L 276_I 1.303 0.99
54_D 344_T 1.296 0.99
290_I 383_M 1.294 0.99
280_I 284_I 1.291 0.99
149_M 165_I 1.285 0.99
279_R 283_I 1.28 0.99
117_E 342_R 1.274 0.99
268_F 271_W 1.268 0.99
60_K 186_E 1.265 0.99
77_G 164_R 1.262 0.99
71_I 75_L 1.25 0.99
144_A 256_M 1.239 0.98
116_A 124_R 1.216 0.98
53_G 58_R 1.216 0.98
250_I 253_D 1.215 0.98
287_T 390_L 1.206 0.98
48_I 51_K 1.202 0.98
23_S 370_T 1.202 0.98
165_I 168_L 1.195 0.98
230_G 358_S 1.186 0.98
292_L 321_A 1.185 0.98
213_K 216_W 1.182 0.98
287_T 291_V 1.181 0.98
280_I 283_I 1.179 0.98
144_A 148_F 1.178 0.98
384_A 388_I 1.178 0.98
50_G 343_F 1.174 0.98
2_D 5_L 1.169 0.97
265_T 268_F 1.163 0.97
368_F 372_T 1.16 0.97
83_A 94_V 1.158 0.97
43_I 351_E 1.156 0.97
333_M 349_S 1.155 0.97
260_I 264_M 1.155 0.97
292_L 318_H 1.151 0.97
41_A 101_G 1.145 0.97
61_V 64_I 1.145 0.97
288_S 292_L 1.143 0.97
126_I 130_F 1.133 0.97
294_W 383_M 1.132 0.97
216_W 220_G 1.13 0.97
366_G 370_T 1.124 0.97
210_F 216_W 1.123 0.97
290_I 294_W 1.119 0.96
31_A 359_G 1.117 0.96
38_G 42_R 1.114 0.96
241_V 248_K 1.112 0.96
178_I 182_M 1.108 0.96
140_L 260_I 1.107 0.96
269_L 324_G 1.106 0.96
205_P 208_S 1.098 0.96
63_F 67_T 1.095 0.96
114_M 184_L 1.09 0.96
240_L 246_F 1.075 0.95
241_V 251_P 1.073 0.95
57_G 61_V 1.073 0.95
285_M 321_A 1.071 0.95
276_I 281_P 1.071 0.95
12_L 15_H 1.07 0.95
115_L 127_I 1.069 0.95
28_L 363_I 1.063 0.95
267_P 271_W 1.061 0.95
24_T 370_T 1.048 0.94
277_G 281_P 1.045 0.94
372_T 377_P 1.045 0.94
43_I 359_G 1.044 0.94
376_Y 380_I 1.044 0.94
196_S 199_P 1.04 0.94
273_S 328_L 1.04 0.94
295_P 314_L 1.039 0.94
281_P 284_I 1.037 0.94
37_A 41_A 1.033 0.94
75_L 84_Q 1.03 0.94
145_I 148_F 1.029 0.94
73_T 171_V 1.027 0.94
62_L 114_M 1.026 0.94
69_M 103_G 1.026 0.94
12_L 16_E 1.023 0.93
253_D 257_I 1.023 0.93
364_L 367_I 1.02 0.93
309_T 312_V 1.019 0.93
165_I 169_A 1.019 0.93
29_I 82_Y 1.014 0.93
264_M 267_P 1.014 0.93
38_G 104_A 1.012 0.93
264_M 268_F 1.01 0.93
116_A 342_R 1.009 0.93
387_V 391_I 1.008 0.93
271_W 274_D 1.007 0.93
126_I 271_W 1.007 0.93
54_D 58_R 1.006 0.93
208_S 340_K 1.004 0.93
339_C 342_R 1.004 0.93
80_P 164_R 1.003 0.93
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
4j05A20.94381000.253Contact Map0.624
1pw4A10.89931000.27Contact Map0.472
3wdoA10.91571000.28Contact Map0.629
4gc0A10.94611000.282Contact Map0.72
4ldsA20.92041000.312Contact Map0.636
2gfpA20.84311000.316Contact Map0.187
3o7qA10.87821000.319Contact Map0.643
2cfqA10.88991000.345Contact Map0.497
2xutA30.9111000.366Contact Map0.53
4apsA20.9111000.386Contact Map0.528
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 4.0019 seconds.