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OPENSEQ.org
RARA - Replication-associated recombination protein A
UniProt: P0AAZ4 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG12690
Length: 447 (429)
Sequences: 1662
Seq/Len: 3.87
RARA
Paralog alert: 0.04 [within 20: 0.00] - ratio of genomes with paralogs
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
359_D 415_Y 5.705 1.00
266_V 298_I 4.115 1.00
42_P 46_E 3.735 1.00
32_Q 169_D 3.37 1.00
295_C 337_I 3.349 1.00
404_V 408_P 3.226 1.00
170_I 211_A 3.188 1.00
283_T 361_R 3.066 1.00
175_T 197_R 3.037 1.00
300_S 335_Q 2.968 1.00
307_D 343_A 2.862 1.00
115_V 137_F 2.51 1.00
266_V 295_C 2.417 1.00
32_Q 172_Q 2.411 1.00
275_L 352_A 2.371 1.00
317_A 336_A 2.334 1.00
330_E 354_K 2.311 1.00
266_V 340_L 2.207 1.00
312_Q 316_A 2.207 1.00
342_C 427_I 2.178 1.00
358_A 362_E 2.165 1.00
278_Y 337_I 2.162 1.00
355_A 417_F 2.115 1.00
166_S 169_D 2.106 1.00
390_R 395_E 2.088 1.00
26_A 42_P 2.035 1.00
28_Y 66_L 2.023 1.00
305_N 335_Q 1.963 1.00
171_E 197_R 1.957 1.00
171_E 198_R 1.953 1.00
192_L 197_R 1.947 1.00
395_E 400_A 1.928 1.00
279_A 356_A 1.926 1.00
350_Y 354_K 1.924 1.00
201_A 211_A 1.92 1.00
283_T 357_L 1.904 1.00
23_E 183_R 1.885 1.00
274_A 337_I 1.885 1.00
89_K 93_E 1.877 1.00
27_Q 183_R 1.869 1.00
305_N 338_V 1.869 1.00
303_V 340_L 1.863 1.00
268_G 405_Y 1.852 1.00
263_H 297_A 1.842 1.00
266_V 303_V 1.835 1.00
375_A 386_G 1.824 1.00
254_R 257_D 1.816 1.00
309_R 312_Q 1.807 0.99
321_F 329_G 1.797 0.99
398_A 421_R 1.781 0.99
253_D 385_Y 1.775 0.99
377_T 380_M 1.764 0.99
34_L 160_Y 1.724 0.99
399_Y 438_D 1.71 0.99
282_I 357_L 1.703 0.99
426_K 429_E 1.701 0.99
28_Y 69_V 1.697 0.99
161_L 383_M 1.68 0.99
167_T 198_R 1.679 0.99
171_E 175_T 1.677 0.99
374_N 377_T 1.669 0.99
81_I 112_V 1.667 0.99
404_V 411_A 1.663 0.99
380_M 385_Y 1.649 0.99
148_E 250_N 1.64 0.99
23_E 27_Q 1.626 0.99
351_T 354_K 1.625 0.99
282_I 326_P 1.621 0.99
347_N 393_H 1.607 0.99
275_L 334_A 1.602 0.98
259_I 290_Y 1.601 0.98
376_P 380_M 1.598 0.98
414_R 417_F 1.585 0.98
45_I 70_I 1.584 0.98
279_A 360_A 1.571 0.98
79_E 97_R 1.562 0.98
374_N 380_M 1.551 0.98
193_P 233_K 1.53 0.98
173_V 208_A 1.527 0.98
277_W 368_V 1.519 0.98
338_V 349_V 1.508 0.97
324_V 332_A 1.508 0.97
233_K 236_L 1.507 0.97
310_A 339_Y 1.507 0.97
77_D 101_N 1.505 0.97
297_A 331_R 1.502 0.97
359_D 413_T 1.493 0.97
354_K 357_L 1.492 0.97
180_D 186_G 1.486 0.97
295_C 340_L 1.486 0.97
330_E 350_Y 1.482 0.97
95_I 135_I 1.47 0.97
292_A 333_I 1.467 0.97
314_A 336_A 1.462 0.97
90_E 93_E 1.45 0.97
24_N 27_Q 1.445 0.97
96_E 99_R 1.444 0.97
255_F 286_G 1.44 0.96
174_L 197_R 1.433 0.96
112_V 126_F 1.431 0.96
298_I 340_L 1.426 0.96
180_D 184_G 1.425 0.96
308_P 335_Q 1.418 0.96
33_H 163_K 1.412 0.96
199_A 234_P 1.408 0.96
318_W 323_R 1.408 0.96
371_H 403_E 1.403 0.96
296_L 323_R 1.4 0.96
300_S 305_N 1.39 0.95
305_N 342_C 1.383 0.95
193_P 231_V 1.381 0.95
366_Y 409_E 1.372 0.95
171_E 201_A 1.37 0.95
36_A 42_P 1.368 0.95
289_L 318_W 1.359 0.95
163_K 166_S 1.358 0.95
262_L 337_I 1.356 0.95
428_G 432_A 1.342 0.94
289_L 322_T 1.341 0.94
329_G 332_A 1.339 0.94
77_D 97_R 1.335 0.94
248_F 281_I 1.323 0.94
263_H 298_I 1.322 0.94
262_L 295_C 1.32 0.93
330_E 357_L 1.316 0.93
319_D 323_R 1.314 0.93
270_A 273_A 1.314 0.93
175_T 194_D 1.31 0.93
331_R 349_V 1.309 0.93
276_Y 415_Y 1.308 0.93
331_R 350_Y 1.3 0.93
338_V 350_Y 1.29 0.92
408_P 411_A 1.29 0.92
174_L 201_A 1.287 0.92
313_V 336_A 1.283 0.92
170_I 201_A 1.279 0.92
263_H 290_Y 1.277 0.92
300_S 311_M 1.272 0.92
197_R 201_A 1.265 0.91
48_G 74_A 1.262 0.91
392_A 405_Y 1.255 0.91
356_A 360_A 1.251 0.91
376_P 379_L 1.241 0.90
101_N 106_R 1.238 0.90
180_D 183_R 1.236 0.90
353_F 357_L 1.234 0.90
56_W 161_L 1.232 0.90
420_N 428_G 1.226 0.90
330_E 353_F 1.219 0.89
338_V 352_A 1.219 0.89
278_Y 333_I 1.218 0.89
305_N 348_A 1.217 0.89
290_Y 297_A 1.214 0.89
312_Q 315_I 1.209 0.89
311_M 317_A 1.207 0.89
296_L 315_I 1.197 0.88
273_A 406_F 1.196 0.88
320_C 332_A 1.196 0.88
275_L 338_V 1.191 0.88
272_D 414_R 1.19 0.88
359_D 363_R 1.189 0.88
167_T 201_A 1.183 0.87
297_A 324_V 1.18 0.87
84_V 115_V 1.171 0.87
253_D 257_D 1.168 0.86
55_L 162_L 1.162 0.86
295_C 336_A 1.162 0.86
292_A 314_A 1.158 0.86
298_I 303_V 1.157 0.86
288_P 329_G 1.15 0.85
110_L 135_I 1.147 0.85
197_R 211_A 1.146 0.85
374_N 385_Y 1.132 0.84
130_I 149_L 1.131 0.84
51_H 136_T 1.128 0.84
398_A 419_T 1.125 0.83
68_E 80_R 1.119 0.83
146_S 380_M 1.118 0.83
392_A 400_A 1.117 0.83
266_V 337_I 1.108 0.82
200_I 214_T 1.102 0.82
429_E 433_W 1.098 0.81
281_I 286_G 1.097 0.81
95_I 129_H 1.097 0.81
429_E 432_A 1.095 0.81
331_R 354_K 1.094 0.81
174_L 215_L 1.083 0.80
255_F 290_Y 1.08 0.80
93_E 96_E 1.077 0.80
348_A 419_T 1.069 0.79
270_A 438_D 1.069 0.79
406_F 410_I 1.066 0.79
276_Y 280_R 1.063 0.78
175_T 179_E 1.063 0.78
23_E 72_R 1.056 0.78
88_V 125_A 1.055 0.78
315_I 320_C 1.055 0.78
274_A 341_A 1.053 0.77
203_L 241_A 1.052 0.77
342_C 431_L 1.052 0.77
433_W 437_Q 1.051 0.77
169_D 172_Q 1.049 0.77
406_F 412_Q 1.048 0.77
257_D 373_R 1.047 0.77
295_C 298_I 1.044 0.77
282_I 291_V 1.043 0.77
307_D 339_Y 1.042 0.76
54_I 157_A 1.038 0.76
168_E 171_E 1.037 0.76
195_E 234_P 1.035 0.76
323_R 329_G 1.026 0.75
53_M 160_Y 1.024 0.75
193_P 196_T 1.023 0.75
271_P 274_A 1.022 0.74
377_T 385_Y 1.019 0.74
199_A 238_T 1.014 0.74
309_R 423_L 1.011 0.73
374_N 379_L 1.009 0.73
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
3pvsA411000.299Contact Map0.709
2r9gA160.45411000.548Contact Map0.853
3bgeA20.44521000.552Contact Map0.524
3ctdA20.47651000.558Contact Map0.811
1sxjD10.71361000.749Contact Map0.479
1sxjC10.72261000.762Contact Map0.517
1sxjE10.60851000.779Contact Map0.495
3u61B40.70921000.782Contact Map0.445
1iqpA60.70251000.785Contact Map0.718
2chqA30.68461000.788Contact Map0.603
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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