May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
RIR3 - Ribonucleoside-diphosphate reductase 2 subunit alpha
UniProt: P39452 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG20257
Length: 714 (702)
Sequences: 1136
Seq/Len: 1.62
RIR3
Paralog alert: 0.07 [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
301_K 685_R 5.349 1.00
506_L 573_V 4.153 1.00
514_R 572_D 4.091 1.00
432_A 507_R 3.91 1.00
298_H 323_A 3.65 1.00
458_E 462_A 3.543 1.00
305_Q 346_N 3.455 1.00
436_E 511_L 3.129 1.00
147_Q 433_R 3.115 1.00
491_L 652_E 3.097 1.00
572_D 576_Y 3.094 1.00
507_R 572_D 3.054 1.00
514_R 576_Y 3.04 1.00
216_E 264_P 3.018 1.00
571_D 575_R 3.007 1.00
436_E 507_R 2.921 1.00
528_Y 578_I 2.882 1.00
439_V 467_I 2.715 1.00
305_Q 344_Y 2.646 1.00
510_M 572_D 2.644 1.00
440_R 515_E 2.556 1.00
303_N 346_N 2.536 1.00
492_D 496_L 2.533 1.00
486_G 636_Q 2.511 1.00
648_D 682_Y 2.502 1.00
471_Q 498_F 2.483 1.00
298_H 302_E 2.482 1.00
648_D 686_K 2.459 1.00
307_A 344_Y 2.445 1.00
510_M 576_Y 2.438 1.00
510_M 514_R 2.388 1.00
506_L 578_I 2.342 1.00
330_H 333_E 2.338 1.00
432_A 504_H 2.217 0.99
266_I 290_V 2.214 0.99
372_V 392_L 2.209 0.99
532_E 541_N 2.18 0.99
471_Q 501_I 2.132 0.99
523_F 574_M 2.118 0.99
292_I 366_I 2.108 0.99
482_G 634_L 2.021 0.98
303_N 348_R 2.017 0.98
318_Y 379_A 1.989 0.98
175_L 448_M 1.981 0.98
88_L 135_L 1.938 0.98
192_R 195_N 1.93 0.98
459_A 463_A 1.898 0.97
60_Q 82_R 1.886 0.97
67_V 77_L 1.881 0.97
216_E 219_A 1.845 0.97
392_L 660_G 1.841 0.97
439_V 583_L 1.806 0.96
188_E 195_N 1.802 0.96
480_R 626_F 1.762 0.96
478_L 483_I 1.756 0.95
196_S 412_D 1.755 0.95
307_A 341_R 1.749 0.95
524_K 529_A 1.737 0.95
567_A 570_R 1.704 0.94
682_Y 686_K 1.689 0.94
214_L 234_V 1.678 0.94
502_T 506_L 1.664 0.93
232_I 272_T 1.66 0.93
60_Q 64_N 1.655 0.93
74_E 78_N 1.643 0.93
346_N 349_D 1.643 0.93
535_S 570_R 1.633 0.93
79_R 139_Q 1.623 0.92
565_M 568_Q 1.617 0.92
196_S 456_S 1.61 0.92
495_N 655_R 1.606 0.92
307_A 335_V 1.597 0.91
482_G 630_E 1.597 0.91
31_R 40_A 1.585 0.91
336_A 344_Y 1.569 0.90
235_M 286_L 1.564 0.90
50_R 55_T 1.562 0.90
523_F 528_Y 1.543 0.89
211_L 231_V 1.539 0.89
239_E 285_T 1.521 0.89
568_Q 572_D 1.503 0.88
496_L 563_R 1.497 0.88
455_P 458_E 1.497 0.88
308_L 345_L 1.49 0.87
536_Q 655_R 1.48 0.87
42_D 46_A 1.476 0.86
372_V 690_T 1.466 0.86
46_A 50_R 1.464 0.86
267_L 343_K 1.461 0.86
484_A 634_L 1.454 0.85
463_A 521_A 1.441 0.85
511_L 572_D 1.438 0.85
237_M 240_D 1.428 0.84
183_I 193_A 1.422 0.84
488_P 492_D 1.419 0.83
486_G 645_K 1.416 0.83
83_D 87_T 1.41 0.83
64_N 68_N 1.408 0.83
436_E 508_T 1.404 0.83
418_G 438_A 1.395 0.82
432_A 436_E 1.386 0.81
188_E 192_R 1.375 0.81
127_A 131_T 1.37 0.80
317_V 339_R 1.37 0.80
486_G 490_A 1.369 0.80
496_L 560_L 1.368 0.80
510_M 573_V 1.36 0.80
567_A 574_M 1.36 0.80
510_M 578_I 1.36 0.80
445_V 469_L 1.357 0.79
216_E 310_S 1.357 0.79
15_D 18_A 1.353 0.79
345_L 350_F 1.351 0.79
63_L 85_V 1.35 0.79
87_T 146_L 1.341 0.78
290_V 354_L 1.34 0.78
308_L 350_F 1.34 0.78
447_D 579_Y 1.334 0.78
504_H 507_R 1.329 0.77
93_H 125_D 1.328 0.77
647_I 667_F 1.328 0.77
85_V 88_L 1.327 0.77
219_A 312_Y 1.325 0.77
45_I 62_R 1.323 0.77
50_R 93_H 1.32 0.77
298_H 328_S 1.32 0.77
39_Q 43_A 1.317 0.77
440_R 508_T 1.313 0.76
58_S 86_I 1.313 0.76
570_R 574_M 1.308 0.76
459_A 521_A 1.308 0.76
455_P 459_A 1.308 0.76
301_K 681_I 1.307 0.76
156_R 430_D 1.307 0.76
235_M 283_I 1.305 0.76
644_E 682_Y 1.303 0.76
571_D 574_M 1.296 0.75
430_D 433_R 1.295 0.75
295_I 298_H 1.294 0.75
519_T 578_I 1.292 0.75
57_S 61_Q 1.286 0.74
91_H 146_L 1.286 0.74
318_Y 374_R 1.283 0.74
108_F 113_T 1.281 0.74
294_D 374_R 1.28 0.74
149_T 153_L 1.279 0.74
425_T 434_T 1.275 0.73
82_R 86_I 1.274 0.73
50_R 57_S 1.27 0.73
500_A 504_H 1.265 0.72
333_E 337_D 1.264 0.72
86_I 90_T 1.262 0.72
320_K 330_H 1.26 0.72
326_A 329_Q 1.26 0.72
567_A 571_D 1.252 0.71
383_N 395_N 1.249 0.71
289_G 365_Y 1.249 0.71
642_G 679_A 1.243 0.71
523_F 539_Q 1.238 0.70
310_S 313_D 1.236 0.70
502_T 584_Q 1.234 0.70
367_M 372_V 1.232 0.70
86_I 93_H 1.229 0.69
299_L 307_A 1.228 0.69
43_A 47_T 1.228 0.69
492_D 546_T 1.227 0.69
533_Y 573_V 1.227 0.69
50_R 125_D 1.225 0.69
195_N 199_Q 1.224 0.69
88_L 146_L 1.221 0.69
620_V 623_P 1.207 0.67
654_T 661_L 1.204 0.67
194_V 237_M 1.203 0.67
505_A 583_L 1.203 0.67
151_E 434_T 1.201 0.67
432_A 503_W 1.195 0.66
378_I 520_F 1.191 0.66
709_C 712_C 1.19 0.66
194_V 241_A 1.19 0.66
411_H 581_Q 1.188 0.66
297_F 368_Y 1.187 0.65
267_L 345_L 1.183 0.65
476_G 599_T 1.183 0.65
63_L 77_L 1.183 0.65
420_L 435_V 1.178 0.65
129_R 133_V 1.178 0.65
54_V 121_R 1.176 0.64
142_E 146_L 1.172 0.64
510_M 523_F 1.169 0.64
84_F 142_E 1.168 0.64
519_T 524_K 1.167 0.63
237_M 241_A 1.163 0.63
485_Y 601_S 1.159 0.63
499_Y 542_W 1.158 0.63
231_V 259_L 1.157 0.62
46_A 96_G 1.155 0.62
629_N 633_A 1.154 0.62
506_L 510_M 1.154 0.62
229_S 273_K 1.153 0.62
64_N 82_R 1.152 0.62
500_A 560_L 1.15 0.62
147_Q 440_R 1.147 0.61
91_H 95_S 1.147 0.61
320_K 324_D 1.146 0.61
401_D 405_D 1.146 0.61
528_Y 533_Y 1.145 0.61
57_S 96_G 1.144 0.61
379_A 527_R 1.144 0.61
272_T 288_L 1.144 0.61
146_L 150_D 1.139 0.61
161_T 254_A 1.128 0.60
432_A 511_L 1.128 0.60
178_C 206_G 1.122 0.59
185_D 215_R 1.121 0.59
272_T 283_I 1.119 0.59
83_D 86_I 1.115 0.58
36_K 39_Q 1.112 0.58
266_I 350_F 1.111 0.58
309_F 340_I 1.11 0.58
55_T 96_G 1.109 0.58
507_R 511_L 1.107 0.57
294_D 684_W 1.106 0.57
201_S 204_G 1.105 0.57
348_R 352_Q 1.104 0.57
33_Q 37_D 1.104 0.57
511_L 514_R 1.101 0.57
157_F 418_G 1.1 0.57
184_E 189_S 1.098 0.56
651_A 686_K 1.097 0.56
58_S 90_T 1.097 0.56
392_L 690_T 1.094 0.56
380_G 526_S 1.094 0.56
630_E 635_Y 1.093 0.56
144_L 515_E 1.092 0.56
45_I 50_R 1.092 0.56
144_L 147_Q 1.089 0.56
60_Q 86_I 1.087 0.55
147_Q 436_E 1.087 0.55
46_A 55_T 1.086 0.55
514_R 575_R 1.084 0.55
69_E 73_D 1.08 0.55
94_T 97_F 1.078 0.54
646_I 663_L 1.076 0.54
57_S 336_A 1.076 0.54
167_C 175_L 1.075 0.54
46_A 57_S 1.075 0.54
271_D 353_R 1.072 0.54
150_D 154_S 1.071 0.54
273_K 357_I 1.071 0.54
420_L 501_I 1.069 0.53
528_Y 570_R 1.067 0.53
389_S 468_G 1.066 0.53
506_L 528_Y 1.062 0.53
139_Q 448_M 1.062 0.53
84_F 88_L 1.061 0.53
473_N 476_G 1.061 0.53
45_I 57_S 1.06 0.53
525_Q 529_A 1.057 0.52
650_Y 661_L 1.057 0.52
50_R 53_S 1.055 0.52
524_K 574_M 1.055 0.52
50_R 54_V 1.051 0.52
411_H 464_S 1.049 0.51
45_I 98_R 1.048 0.51
443_T 516_R 1.048 0.51
255_G 599_T 1.046 0.51
372_V 660_G 1.046 0.51
667_F 679_A 1.043 0.51
479_A 625_P 1.041 0.51
589_T 593_S 1.041 0.51
523_F 665_L 1.039 0.50
503_W 568_Q 1.035 0.50
541_N 563_R 1.034 0.50
307_A 340_I 1.034 0.50
54_V 57_S 1.033 0.50
268_R 343_K 1.033 0.50
81_S 84_F 1.033 0.50
126_F 131_T 1.033 0.50
217_A 268_R 1.031 0.49
445_V 467_I 1.031 0.49
314_V 322_F 1.03 0.49
295_I 332_D 1.028 0.49
325_V 334_L 1.028 0.49
377_P 394_V 1.028 0.49
428_S 431_F 1.028 0.49
330_H 334_L 1.027 0.49
644_E 678_K 1.023 0.49
242_F 255_G 1.023 0.49
45_I 55_T 1.021 0.48
51_P 57_S 1.015 0.48
15_D 21_A 1.014 0.48
444_A 516_R 1.012 0.47
615_G 620_V 1.012 0.47
665_L 679_A 1.011 0.47
87_T 91_H 1.01 0.47
429_P 567_A 1.01 0.47
53_S 125_D 1.009 0.47
191_G 356_E 1.007 0.47
131_T 135_L 1.007 0.47
463_A 525_Q 1.007 0.47
599_T 605_I 1.007 0.47
99_F 254_A 1.005 0.47
28_S 33_Q 1.005 0.47
223_R 312_Y 1.005 0.47
62_R 65_W 1.004 0.47
523_F 576_Y 1.003 0.47
399_E 408_R 1.002 0.46
155_G 596_N 1.002 0.46
506_L 533_Y 1.001 0.46
354_L 366_I 1 0.46
550_G 560_L 1 0.46
379_A 525_Q 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
1peqA111000.099Contact Map0.608
2xapA30.94261000.212Contact Map0.633
3hncA20.91321000.22Contact Map0.689
3k8tA10.91321000.231Contact Map0.672
2wghA20.87821000.235Contact Map0.697
3o0qA20.77731000.334Contact Map0.621
1l1lA40.71431000.498Contact Map0.393
2ebuA10.14017.50.99Contact Map0.202
2jr7A10.06727.10.99Contact Map0.764
3ix3A20.21716.90.99Contact Map0.24
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 0.0421 seconds.