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OPENSEQ.org
RIR1 - Ribonucleoside-diphosphate reductase 1 subunit alpha
UniProt: P00452 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10660
Length: 761 (740)
Sequences: 1186
Seq/Len: 1.60
RIR1
Paralog alert: 0.25 [within 20: 0.00] - ratio of genomes with paralogs
Cluster includes: RIR1 RIR3
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
345_T 376_E 5.08 1.00
348_L 723_K 4.882 1.00
479_E 553_K 4.145 1.00
552_L 606_I 3.886 1.00
504_K 508_M 3.814 1.00
560_K 605_S 3.341 1.00
263_A 311_L 3.259 1.00
486_V 513_L 3.069 1.00
356_F 361_V 2.977 1.00
553_K 605_S 2.851 1.00
573_Y 611_L 2.832 1.00
532_S 667_E 2.718 1.00
483_I 557_E 2.703 1.00
352_D 394_K 2.559 1.00
354_T 389_R 2.494 1.00
517_V 544_F 2.451 1.00
483_I 553_K 2.399 1.00
552_L 611_L 2.388 1.00
352_D 392_R 2.365 1.00
131_M 178_A 2.322 1.00
195_R 480_E 2.28 0.99
134_F 194_K 2.252 0.99
354_T 392_R 2.221 0.99
443_A 692_S 2.211 0.99
420_C 443_A 2.209 0.99
350_G 394_K 2.195 0.99
354_T 383_E 2.132 0.99
538_N 542_K 2.097 0.99
568_F 607_K 2.089 0.99
560_K 609_H 2.071 0.99
9_K 21_K 2.068 0.99
479_E 549_Y 2.046 0.99
537_N 684_I 2.039 0.99
556_N 560_K 2.03 0.98
486_V 616_L 2.014 0.98
208_P 214_G 2.006 0.98
339_I 414_I 1.999 0.98
378_L 381_K 1.985 0.98
143_F 173_Y 1.979 0.98
556_N 605_S 1.948 0.98
605_S 609_H 1.946 0.98
487_R 561_E 1.946 0.98
556_N 609_H 1.944 0.98
420_C 728_T 1.942 0.98
350_G 396_V 1.902 0.97
604_E 608_T 1.893 0.97
139_R 201_S 1.889 0.97
345_T 349_K 1.886 0.97
239_A 242_S 1.88 0.97
258_A 278_C 1.857 0.97
641_Y 644_I 1.834 0.97
7_V 12_G 1.805 0.96
313_V 337_V 1.803 0.96
211_I 214_G 1.787 0.96
680_Q 724_F 1.785 0.96
680_Q 720_T 1.784 0.96
194_K 198_D 1.751 0.95
600_E 603_R 1.728 0.95
15_E 21_K 1.72 0.95
248_V 251_R 1.72 0.95
209_T 301_A 1.716 0.95
54_K 57_D 1.712 0.94
374_E 377_R 1.711 0.94
465_S 485_A 1.71 0.94
210_P 214_G 1.679 0.94
282_Y 330_V 1.668 0.93
9_K 12_G 1.659 0.93
286_Q 332_H 1.647 0.93
242_S 245_V 1.643 0.93
573_Y 578_L 1.634 0.92
130_Q 194_K 1.634 0.92
578_L 606_I 1.633 0.92
342_L 345_T 1.626 0.92
598_D 601_A 1.619 0.92
282_Y 333_M 1.617 0.92
459_I 500_I 1.614 0.92
131_M 174_I 1.61 0.92
467_F 482_A 1.606 0.92
652_L 656_V 1.606 0.92
263_A 357_S 1.604 0.91
174_I 178_A 1.595 0.91
577_I 582_T 1.595 0.91
530_R 665_A 1.588 0.91
479_E 550_Y 1.573 0.90
552_L 578_L 1.563 0.90
86_I 90_R 1.562 0.90
7_V 10_R 1.549 0.90
245_V 248_V 1.548 0.89
222_F 495_Y 1.545 0.89
580_I 603_R 1.542 0.89
248_V 252_A 1.526 0.89
204_K 477_E 1.514 0.88
517_V 547_I 1.506 0.88
134_F 174_I 1.505 0.88
249_S 252_A 1.505 0.88
373_E 422_T 1.476 0.86
373_E 377_R 1.464 0.86
532_S 536_A 1.449 0.85
9_K 15_E 1.447 0.85
134_F 198_D 1.444 0.85
10_R 55_T 1.444 0.85
548_Q 552_L 1.442 0.84
519_N 522_Y 1.44 0.84
385_D 388_I 1.439 0.84
660_E 664_D 1.433 0.84
541_H 687_K 1.428 0.84
528_G 665_A 1.427 0.84
556_N 606_I 1.426 0.84
443_A 728_T 1.424 0.83
490_D 562_Q 1.422 0.83
478_L 547_I 1.422 0.83
381_K 385_D 1.417 0.83
287_T 290_K 1.417 0.83
501_P 504_K 1.415 0.83
11_D 16_R 1.413 0.83
346_R 354_T 1.401 0.82
487_R 554_A 1.399 0.82
33_L 83_R 1.387 0.81
26_L 38_I 1.384 0.81
21_K 91_K 1.382 0.81
21_K 55_T 1.381 0.81
573_Y 603_R 1.381 0.81
557_E 605_S 1.376 0.80
208_P 211_I 1.376 0.80
321_N 329_R 1.376 0.80
131_M 190_L 1.374 0.80
245_V 645_K 1.374 0.80
279_I 319_L 1.367 0.80
368_F 428_P 1.366 0.80
412_I 431_A 1.365 0.80
314_E 391_Q 1.364 0.80
568_F 573_Y 1.364 0.80
7_V 11_D 1.364 0.80
531_Y 634_G 1.361 0.79
245_V 249_S 1.342 0.78
697_T 721_A 1.341 0.78
373_E 376_E 1.335 0.78
652_L 655_V 1.323 0.77
546_A 550_Y 1.32 0.76
346_R 383_E 1.319 0.76
483_I 554_A 1.318 0.76
341_K 422_T 1.315 0.76
641_Y 645_K 1.314 0.76
131_M 194_K 1.31 0.76
10_R 21_K 1.309 0.76
337_V 402_M 1.306 0.75
720_T 724_F 1.299 0.75
7_V 55_T 1.294 0.74
524_L 529_K 1.293 0.74
578_L 611_L 1.287 0.74
10_R 15_E 1.285 0.74
692_S 728_T 1.28 0.73
355_L 393_V 1.279 0.73
199_A 481_L 1.278 0.73
17_I 22_I 1.274 0.73
357_S 360_D 1.274 0.73
314_E 393_V 1.274 0.73
542_K 596_H 1.271 0.73
552_L 573_Y 1.268 0.72
139_R 198_D 1.268 0.72
221_Q 496_Q 1.261 0.72
344_Y 416_N 1.26 0.72
229_E 257_N 1.258 0.71
203_F 629_S 1.253 0.71
366_D 369_F 1.249 0.71
89_L 156_L 1.246 0.70
505_R 509_G 1.243 0.70
490_D 612_R 1.241 0.70
492_L 513_L 1.24 0.70
685_M 693_I 1.235 0.69
548_Q 617_S 1.233 0.69
55_T 59_H 1.23 0.69
564_A 568_F 1.222 0.68
600_E 607_K 1.222 0.68
140_D 170_Q 1.217 0.68
190_L 193_V 1.216 0.68
5_L 19_L 1.214 0.68
7_V 20_D 1.212 0.67
341_K 722_Y 1.208 0.67
342_L 376_E 1.204 0.67
211_I 215_V 1.199 0.66
82_A 501_P 1.195 0.66
263_A 266_S 1.194 0.66
509_G 567_W 1.19 0.65
420_C 692_S 1.189 0.65
9_K 91_K 1.188 0.65
12_G 16_R 1.187 0.65
223_S 496_Q 1.187 0.65
632_T 638_P 1.186 0.65
305_F 436_S 1.18 0.64
266_S 359_S 1.18 0.64
467_F 547_I 1.178 0.64
309_W 375_F 1.176 0.64
7_V 21_K 1.176 0.64
11_D 30_A 1.176 0.64
284_H 287_T 1.176 0.64
682_V 693_I 1.175 0.64
249_S 288_A 1.174 0.64
412_I 571_T 1.173 0.64
252_A 702_S 1.173 0.64
492_L 515_I 1.172 0.64
244_I 645_K 1.172 0.64
55_T 91_K 1.172 0.64
230_C 240_T 1.172 0.64
548_Q 633_N 1.17 0.63
656_V 659_Y 1.163 0.63
8_T 14_T 1.161 0.63
739_E 742_Q 1.161 0.63
369_F 372_Q 1.159 0.62
479_E 483_I 1.157 0.62
553_K 557_E 1.154 0.62
56_S 92_K 1.154 0.62
459_I 502_A 1.152 0.62
551_L 616_L 1.152 0.62
210_P 213_S 1.147 0.61
655_V 659_Y 1.147 0.61
205_I 211_I 1.144 0.61
679_L 683_G 1.14 0.60
556_N 568_F 1.137 0.60
296_G 312_E 1.133 0.60
393_V 398_L 1.133 0.60
520_F 540_T 1.133 0.60
17_I 20_D 1.13 0.59
7_V 15_E 1.129 0.59
120_L 486_V 1.127 0.59
289_V 302_A 1.127 0.59
243_A 502_A 1.127 0.59
276_T 320_K 1.125 0.59
17_I 30_A 1.125 0.59
12_G 15_E 1.119 0.58
245_V 641_Y 1.117 0.58
469_L 547_I 1.116 0.58
522_Y 632_T 1.116 0.58
231_G 236_S 1.115 0.58
322_N 696_N 1.114 0.58
245_V 643_S 1.111 0.57
230_C 252_A 1.109 0.57
255_G 519_N 1.108 0.57
137_H 171_F 1.108 0.57
317_L 413_Y 1.108 0.57
133_T 138_D 1.105 0.57
305_F 440_L 1.105 0.57
6_L 14_T 1.105 0.57
197_Y 201_S 1.104 0.57
210_P 216_R 1.102 0.57
425_P 445_P 1.101 0.56
7_V 53_I 1.097 0.56
50_Y 57_D 1.094 0.56
25_V 59_H 1.094 0.56
568_F 609_H 1.092 0.55
406_R 718_L 1.09 0.55
280_P 395_A 1.09 0.55
9_K 55_T 1.089 0.55
211_I 216_R 1.087 0.55
377_R 381_K 1.085 0.55
678_Y 695_A 1.084 0.55
283_K 643_S 1.084 0.55
522_Y 631_A 1.083 0.55
142_T 203_F 1.083 0.55
192_Y 195_R 1.082 0.54
210_P 294_Q 1.082 0.54
7_V 22_I 1.081 0.54
318_V 401_L 1.079 0.54
302_A 632_T 1.079 0.54
355_L 398_L 1.077 0.54
247_Y 250_Q 1.076 0.54
226_V 648_K 1.075 0.54
265_G 301_A 1.073 0.54
603_R 607_K 1.071 0.53
356_F 389_R 1.071 0.53
19_L 23_H 1.069 0.53
235_D 242_S 1.069 0.53
93_A 168_S 1.066 0.53
279_I 672_M 1.066 0.53
18_N 21_K 1.066 0.53
565_C 571_T 1.066 0.53
208_P 212_M 1.066 0.53
205_I 465_S 1.062 0.52
569_N 574_A 1.062 0.52
190_L 194_K 1.061 0.52
539_L 543_T 1.061 0.52
205_I 210_P 1.058 0.52
170_Q 201_S 1.058 0.52
122_D 183_N 1.057 0.52
152_E 156_L 1.057 0.52
479_E 557_E 1.055 0.52
315_S 542_K 1.054 0.52
626_S 643_S 1.053 0.51
245_V 653_R 1.05 0.51
25_V 28_W 1.049 0.51
520_F 524_L 1.049 0.51
9_K 13_S 1.048 0.51
243_A 645_K 1.048 0.51
19_L 22_I 1.045 0.51
257_N 446_T 1.042 0.50
440_L 514_G 1.041 0.50
44_R 69_L 1.04 0.50
243_A 500_I 1.04 0.50
314_E 398_L 1.039 0.50
436_S 442_I 1.039 0.50
170_Q 197_Y 1.039 0.50
208_P 216_R 1.038 0.50
623_E 696_N 1.037 0.50
106_V 128_F 1.035 0.50
313_V 398_L 1.035 0.50
679_L 724_F 1.034 0.49
247_Y 645_K 1.034 0.49
23_H 53_I 1.033 0.49
472_I 481_L 1.029 0.49
225_C 731_Y 1.028 0.49
525_A 638_P 1.028 0.49
238_N 404_Q 1.027 0.49
268_I 272_E 1.025 0.48
396_V 400_S 1.023 0.48
552_L 556_N 1.021 0.48
347_L 395_A 1.02 0.48
336_G 413_Y 1.016 0.48
220_R 467_F 1.015 0.47
492_L 496_Q 1.015 0.47
541_H 684_I 1.015 0.47
523_Y 543_T 1.014 0.47
416_N 718_L 1.014 0.47
17_I 23_H 1.013 0.47
351_E 394_K 1.013 0.47
549_Y 602_L 1.013 0.47
246_K 249_S 1.012 0.47
233_S 236_S 1.012 0.47
552_L 690_D 1.011 0.47
510_R 567_W 1.01 0.47
458_E 510_R 1.01 0.47
419_H 422_T 1.008 0.47
290_K 293_S 1.008 0.47
20_D 23_H 1.007 0.47
18_N 23_H 1.004 0.46
10_R 22_I 1.003 0.46
36_V 52_G 1.001 0.46
389_R 392_R 1 0.46
241_S 288_A 1 0.46
15_E 55_T 1 0.46
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
2xapA311000.11Contact Map0.592
3hncA20.94481000.179Contact Map0.642
3k8tA10.94481000.187Contact Map0.689
2wghA20.82921000.257Contact Map0.698
1peqA10.8831000.267Contact Map0.58
3o0qA20.73721000.369Contact Map0.542
1l1lA40.68861000.522Contact Map0.332
2ebuA10.131415.20.99Contact Map0.253
4l1jA20.24056.30.991Contact Map0.223
4dzhA10.07885.90.991Contact Map0.262
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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