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OPENSEQ.org
RNR - Ribonuclease R
UniProt: P21499 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG11259
Length: 813 (715)
Sequences: 1525
Seq/Len: 2.13
RNR
Paralog alert: 0.29 [within 20: 0.00] - ratio of genomes with paralogs
Cluster includes: RNB RNR
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
648_K 707_E 3.996 1.00
261_V 369_K 3.823 1.00
360_S 364_R 3.809 1.00
244_Q 311_P 3.698 1.00
274_E 384_T 3.642 1.00
349_D 376_S 3.485 1.00
195_E 209_K 3.454 1.00
238_P 241_V 3.448 1.00
646_V 707_E 3.408 1.00
108_L 139_A 3.352 1.00
264_R 349_D 3.118 1.00
290_G 358_T 2.855 1.00
352_C 375_M 2.815 1.00
464_I 560_L 2.76 1.00
292_G 358_T 2.757 1.00
564_A 578_L 2.707 1.00
286_E 294_R 2.697 1.00
102_E 123_Q 2.503 1.00
323_V 623_A 2.417 1.00
298_A 354_V 2.412 1.00
108_L 126_A 2.386 1.00
268_L 375_M 2.375 1.00
241_V 315_E 2.372 1.00
706_V 724_L 2.362 1.00
482_L 613_G 2.36 1.00
387_W 453_N 2.333 1.00
238_P 315_E 2.333 1.00
649_G 661_V 2.295 1.00
709_R 723_S 2.28 1.00
123_Q 146_V 2.264 1.00
321_T 574_P 2.245 1.00
156_Y 163_G 2.21 1.00
345_N 348_V 2.189 1.00
321_T 619_A 2.187 1.00
320_G 619_A 2.159 1.00
156_Y 183_I 2.122 0.99
485_I 549_D 2.093 0.99
528_D 532_A 2.09 0.99
485_I 553_R 2.073 0.99
111_S 114_Q 2.07 0.99
372_E 583_K 2.069 0.99
77_A 82_L 2.067 0.99
397_R 408_E 2.052 0.99
680_D 693_G 2.047 0.99
194_V 208_G 2.038 0.99
125_L 143_R 2.027 0.99
190_F 216_D 2.014 0.99
657_F 660_F 2.009 0.99
303_S 576_L 2.009 0.99
250_E 336_V 1.996 0.99
245_V 336_V 1.98 0.99
89_V 115_M 1.979 0.99
87_G 99_L 1.959 0.99
657_F 671_L 1.956 0.99
679_N 682_Y 1.949 0.99
266_L 286_E 1.946 0.99
283_V 459_I 1.944 0.99
307_R 310_T 1.928 0.99
359_V 465_L 1.922 0.99
268_L 378_H 1.916 0.99
294_R 356_E 1.913 0.99
354_V 373_A 1.91 0.99
296_W 356_E 1.879 0.98
354_V 371_Y 1.878 0.98
168_D 191_V 1.874 0.98
253_P 256_A 1.865 0.98
261_V 371_Y 1.862 0.98
683_R 694_E 1.86 0.98
212_E 229_R 1.851 0.98
538_M 689_Q 1.832 0.98
356_E 371_Y 1.825 0.98
244_Q 310_T 1.819 0.98
487_D 553_R 1.802 0.98
46_I 55_L 1.778 0.98
651_I 700_Y 1.775 0.98
239_Q 243_Q 1.766 0.97
256_A 259_G 1.76 0.97
346_P 377_S 1.757 0.97
317_R 612_L 1.756 0.97
659_F 672_V 1.727 0.97
468_I 560_L 1.723 0.97
453_N 456_H 1.714 0.97
127_Q 140_R 1.701 0.97
248_L 341_L 1.701 0.97
165_V 192_V 1.697 0.97
419_K 423_E 1.691 0.96
636_C 713_V 1.686 0.96
497_F 501_L 1.681 0.96
284_Y 298_A 1.675 0.96
275_D 435_K 1.67 0.96
358_T 367_G 1.67 0.96
497_F 539_L 1.668 0.96
439_N 443_R 1.66 0.96
28_L 68_L 1.66 0.96
437_I 448_E 1.659 0.96
574_P 616_C 1.643 0.96
389_I 404_V 1.638 0.96
355_C 469_S 1.637 0.96
99_L 110_L 1.634 0.95
86_K 125_L 1.627 0.95
634_L 637_D 1.625 0.95
296_W 354_V 1.621 0.95
410_L 462_C 1.618 0.95
619_A 622_R 1.61 0.95
164_F 175_D 1.604 0.95
90_I 100_R 1.59 0.95
501_L 535_L 1.589 0.94
123_Q 145_L 1.588 0.94
178_I 186_A 1.579 0.94
154_G 165_V 1.572 0.94
396_L 400_Y 1.569 0.94
326_P 630_V 1.568 0.94
279_F 380_R 1.545 0.93
649_G 706_V 1.539 0.93
248_L 336_V 1.538 0.93
317_R 615_H 1.534 0.93
191_V 226_I 1.531 0.93
372_E 587_A 1.53 0.93
40_L 55_L 1.529 0.93
710_V 722_F 1.527 0.93
290_G 366_T 1.516 0.92
179_P 182_Q 1.508 0.92
118_C 141_I 1.497 0.92
614_Q 618_M 1.494 0.92
59_L 76_Y 1.485 0.91
283_V 410_L 1.467 0.91
268_L 352_C 1.465 0.91
86_K 123_Q 1.464 0.91
298_A 373_A 1.463 0.91
358_T 366_T 1.461 0.91
257_K 264_R 1.459 0.90
648_K 705_R 1.455 0.90
672_V 706_V 1.45 0.90
285_C 410_L 1.448 0.90
89_V 97_G 1.446 0.90
268_L 298_A 1.437 0.90
365_L 469_S 1.437 0.90
646_V 709_R 1.436 0.90
443_R 637_D 1.432 0.89
526_V 535_L 1.427 0.89
387_W 456_H 1.423 0.89
352_C 373_A 1.417 0.89
267_P 378_H 1.416 0.89
674_V 691_L 1.416 0.89
381_L 389_I 1.415 0.89
315_E 318_N 1.414 0.89
387_W 391_Q 1.413 0.89
62_M 67_Q 1.408 0.88
98_F 107_D 1.405 0.88
164_F 177_L 1.405 0.88
99_L 124_V 1.4 0.88
654_V 691_L 1.394 0.88
381_L 407_L 1.39 0.87
126_A 141_I 1.387 0.87
97_G 141_I 1.384 0.87
357_M 469_S 1.381 0.87
351_L 374_V 1.379 0.87
711_E 723_S 1.378 0.87
99_L 141_I 1.373 0.87
186_A 210_I 1.357 0.86
176_I 208_G 1.353 0.85
27_H 44_L 1.35 0.85
340_G 345_N 1.35 0.85
659_F 677_L 1.35 0.85
482_L 616_C 1.345 0.85
506_L 531_D 1.341 0.85
500_V 538_M 1.339 0.85
564_A 581_A 1.335 0.84
526_V 536_Q 1.331 0.84
91_G 115_M 1.328 0.84
335_E 339_N 1.323 0.84
642_Q 645_N 1.323 0.84
273_G 386_V 1.321 0.84
246_A 336_V 1.321 0.84
415_K 454_D 1.32 0.84
293_W 416_V 1.32 0.84
418_D 457_K 1.314 0.83
230_T 629_D 1.314 0.83
285_C 409_E 1.313 0.83
355_C 370_F 1.309 0.83
89_V 99_L 1.305 0.83
615_H 619_A 1.301 0.82
390_L 408_E 1.3 0.82
359_V 365_L 1.3 0.82
99_L 126_A 1.295 0.82
668_I 720_I 1.287 0.81
482_L 577_T 1.281 0.81
312_L 654_V 1.278 0.81
292_G 361_S 1.275 0.80
370_F 469_S 1.274 0.80
88_T 123_Q 1.268 0.80
679_N 698_Q 1.266 0.80
651_I 659_F 1.265 0.80
271_I 458_L 1.261 0.79
165_V 208_G 1.258 0.79
156_Y 165_V 1.257 0.79
287_K 412_N 1.256 0.79
385_K 396_L 1.253 0.79
654_V 659_F 1.251 0.79
228_L 330_I 1.243 0.78
672_V 676_S 1.24 0.78
370_F 470_A 1.24 0.78
545_Q 621_R 1.239 0.78
713_V 720_I 1.236 0.78
353_M 372_E 1.236 0.78
487_D 547_I 1.231 0.77
523_L 526_V 1.229 0.77
411_H 415_K 1.222 0.76
388_H 393_D 1.216 0.76
99_L 139_A 1.216 0.76
234_P 622_R 1.211 0.76
24_I 28_L 1.21 0.75
284_Y 354_V 1.207 0.75
368_Y 469_S 1.206 0.75
233_I 330_I 1.203 0.75
701_R 704_D 1.202 0.75
670_G 722_F 1.199 0.74
360_S 366_T 1.197 0.74
197_T 209_K 1.195 0.74
36_S 39_E 1.178 0.73
414_Y 461_E 1.166 0.72
297_V 357_M 1.164 0.71
223_A 633_W 1.164 0.71
533_E 662_R 1.162 0.71
27_H 35_A 1.157 0.71
285_C 406_H 1.156 0.71
664_D 705_R 1.156 0.71
636_C 720_I 1.15 0.70
37_R 56_R 1.148 0.70
452_R 457_K 1.148 0.70
125_L 142_V 1.146 0.70
323_V 574_P 1.144 0.69
616_C 619_A 1.142 0.69
292_G 366_T 1.138 0.69
269_V 406_H 1.136 0.69
421_R 461_E 1.134 0.68
323_V 626_A 1.132 0.68
418_D 422_E 1.132 0.68
498_R 508_L 1.13 0.68
244_Q 307_R 1.128 0.68
126_A 139_A 1.125 0.68
501_L 522_L 1.121 0.67
284_Y 296_W 1.121 0.67
368_Y 473_F 1.121 0.67
473_F 477_A 1.119 0.67
379_A 399_Q 1.118 0.67
320_G 616_C 1.118 0.67
288_K 292_G 1.115 0.67
164_F 205_K 1.111 0.66
475_E 562_S 1.109 0.66
195_E 211_V 1.108 0.66
474_V 578_L 1.106 0.66
685_D 688_G 1.105 0.66
269_V 381_L 1.104 0.65
550_P 613_G 1.104 0.65
175_D 206_A 1.104 0.65
708_V 722_F 1.103 0.65
165_V 210_I 1.103 0.65
276_A 279_F 1.103 0.65
678_D 682_Y 1.101 0.65
268_L 283_V 1.101 0.65
21_R 61_A 1.099 0.65
223_A 634_L 1.098 0.65
169_D 230_T 1.092 0.64
347_Q 376_S 1.092 0.64
21_R 65_D 1.092 0.64
53_E 56_R 1.091 0.64
581_A 585_L 1.087 0.64
646_V 725_I 1.084 0.63
109_Y 112_S 1.084 0.63
346_P 382_T 1.084 0.63
31_R 35_A 1.083 0.63
439_N 445_E 1.082 0.63
263_L 356_E 1.081 0.63
658_G 671_L 1.081 0.63
706_V 725_I 1.079 0.63
343_S 570_I 1.079 0.63
353_M 582_I 1.079 0.63
288_K 366_T 1.079 0.63
273_G 384_T 1.074 0.62
165_V 194_V 1.074 0.62
193_V 212_E 1.072 0.62
263_L 373_A 1.072 0.62
471_A 578_L 1.071 0.62
472_R 476_K 1.071 0.62
524_E 527_A 1.07 0.62
650_V 664_D 1.07 0.62
288_K 358_T 1.068 0.62
124_V 141_I 1.067 0.62
284_Y 378_H 1.064 0.61
398_E 401_A 1.063 0.61
321_T 616_C 1.062 0.61
308_P 386_V 1.062 0.61
273_G 382_T 1.059 0.61
241_V 245_V 1.057 0.61
321_T 623_A 1.056 0.60
682_Y 698_Q 1.052 0.60
98_F 109_Y 1.051 0.60
273_G 380_R 1.048 0.60
639_M 710_V 1.048 0.60
27_H 43_E 1.048 0.60
409_E 412_N 1.046 0.59
149_T 199_R 1.045 0.59
578_L 582_I 1.044 0.59
322_S 331_P 1.044 0.59
583_K 587_A 1.043 0.59
175_D 205_K 1.042 0.59
313_D 580_R 1.039 0.59
58_R 61_A 1.038 0.58
298_A 356_E 1.037 0.58
183_I 186_A 1.036 0.58
41_A 55_L 1.036 0.58
470_A 564_A 1.034 0.58
118_C 124_V 1.031 0.58
523_L 539_L 1.03 0.58
712_A 721_D 1.03 0.58
639_M 668_I 1.027 0.57
521_E 525_S 1.026 0.57
310_T 314_R 1.025 0.57
274_E 382_T 1.025 0.57
88_T 100_R 1.025 0.57
63_E 76_Y 1.023 0.57
41_A 52_L 1.023 0.57
14_Y 17_P 1.022 0.57
389_I 400_Y 1.019 0.56
256_A 304_Y 1.019 0.56
274_E 385_K 1.017 0.56
390_L 407_L 1.016 0.56
167_P 171_R 1.016 0.56
252_V 257_K 1.016 0.56
264_R 374_V 1.013 0.56
681_Y 694_E 1.012 0.56
418_D 461_E 1.01 0.55
151_Q 195_E 1.01 0.55
272_D 281_D 1.007 0.55
287_K 409_E 1.006 0.55
490_S 544_K 1.006 0.55
187_R 190_F 1.001 0.54
257_K 374_V 1.001 0.54
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
2id0A40.78231000.293Contact Map0.729
2vnuD10.80441000.324Contact Map0.675
4ifdJ10.86351000.326Contact Map0.64
2r7dA30.57071000.546Contact Map0.624
3bzcA10.75651000.886Contact Map0.429
1go3E20.218999.90.914Contact Map0.72
1e3pA10.729499.90.916Contact Map0.162
4aybE10.211699.80.925Contact Map0.623
2ckzB20.243599.80.927Contact Map0.487
1a62A10.147699.70.934Contact Map0.524
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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