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OPENSEQ.org
RADA - DNA repair protein RadA
UniProt: P24554 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG11296
Length: 460 (454)
Sequences: 1305
Seq/Len: 2.87
RADA
Paralog alert: 0.01 [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
166_A 174_M 4.682 1.00
129_T 137_V 3.834 1.00
342_L 358_V 3.419 1.00
341_L 378_L 3.308 1.00
112_L 218_V 3.292 1.00
429_V 444_I 3.169 1.00
426_R 443_Q 3.162 1.00
12_N 35_T 3.002 1.00
13_E 30_A 2.994 1.00
431_A 448_K 2.966 1.00
299_S 396_V 2.913 1.00
406_I 447_V 2.869 1.00
24_Q 29_H 2.85 1.00
97_A 205_T 2.806 1.00
416_I 427_A 2.775 1.00
18_Y 26_S 2.758 1.00
301_M 376_A 2.755 1.00
16_A 26_S 2.592 1.00
22_Q 34_I 2.563 1.00
207_F 213_V 2.48 1.00
397_F 412_G 2.42 1.00
30_A 33_T 2.338 1.00
152_N 169_E 2.306 1.00
393_D 425_R 2.249 1.00
378_L 400_V 2.244 1.00
80_G 85_D 2.216 1.00
12_N 33_T 2.205 1.00
416_I 442_M 2.202 1.00
379_L 396_V 2.201 1.00
124_K 172_K 2.198 1.00
316_A 380_A 2.163 1.00
166_A 207_F 2.112 1.00
353_M 381_M 2.108 1.00
174_M 215_I 2.078 1.00
396_V 428_I 2.072 1.00
65_K 68_D 2.058 1.00
16_A 34_I 1.997 1.00
158_S 185_A 1.989 1.00
22_Q 26_S 1.973 1.00
8_A 17_D 1.959 0.99
78_S 85_D 1.952 0.99
296_S 387_D 1.936 0.99
447_V 453_A 1.899 0.99
116_L 175_V 1.865 0.99
242_L 257_H 1.851 0.99
434_V 446_G 1.831 0.99
18_Y 34_I 1.811 0.99
12_N 37_V 1.797 0.99
92_V 216_V 1.796 0.99
103_N 242_L 1.791 0.99
342_L 353_M 1.759 0.99
420_A 441_G 1.723 0.98
163_C 207_F 1.71 0.98
395_V 427_A 1.698 0.98
167_E 211_R 1.664 0.98
16_A 27_A 1.635 0.98
179_I 200_T 1.615 0.97
159_I 182_M 1.605 0.97
16_A 22_Q 1.59 0.97
282_N 285_A 1.59 0.97
187_V 195_A 1.57 0.97
314_I 362_V 1.565 0.97
176_I 182_M 1.55 0.96
321_S 324_A 1.55 0.96
124_K 150_N 1.545 0.96
379_L 453_A 1.544 0.96
394_L 426_R 1.52 0.96
10_V 17_D 1.507 0.95
181_V 231_K 1.48 0.95
164_L 167_E 1.456 0.94
101_G 242_L 1.44 0.94
327_R 359_F 1.439 0.94
406_I 450_L 1.429 0.93
26_S 34_I 1.42 0.93
382_V 453_A 1.415 0.93
170_Q 211_R 1.398 0.92
103_N 231_K 1.398 0.92
159_I 200_T 1.395 0.92
342_L 381_M 1.395 0.92
333_L 338_L 1.385 0.92
251_F 421_K 1.375 0.92
18_Y 22_Q 1.369 0.91
382_V 454_L 1.366 0.91
207_F 211_R 1.358 0.91
101_G 277_L 1.355 0.91
64_Q 68_D 1.352 0.91
119_L 173_L 1.351 0.91
207_F 215_I 1.35 0.91
379_L 390_L 1.339 0.90
426_R 445_F 1.338 0.90
378_L 450_L 1.328 0.90
128_V 162_I 1.326 0.90
243_L 277_L 1.316 0.89
25_C 28_C 1.308 0.89
138_A 142_H 1.298 0.88
395_V 419_A 1.293 0.88
83_E 268_G 1.277 0.87
11_C 14_C 1.274 0.87
63_V 126_L 1.274 0.87
154_L 165_I 1.274 0.87
288_L 300_V 1.274 0.87
74_L 135_Q 1.255 0.86
121_Q 148_T 1.248 0.85
394_L 428_I 1.23 0.84
100_I 216_V 1.213 0.83
412_G 429_V 1.207 0.83
360_V 377_L 1.204 0.82
123_M 172_K 1.204 0.82
256_S 289_S 1.199 0.82
379_L 454_L 1.199 0.82
160_E 185_A 1.198 0.82
448_K 452_D 1.197 0.82
300_V 311_L 1.194 0.82
271_A 278_R 1.192 0.82
92_V 173_L 1.188 0.81
208_A 215_I 1.186 0.81
87_V 268_G 1.183 0.81
240_S 243_L 1.181 0.81
401_G 405_E 1.181 0.81
165_I 169_E 1.176 0.80
353_M 385_L 1.165 0.80
114_Q 144_L 1.162 0.79
390_L 394_L 1.141 0.78
347_R 384_S 1.139 0.77
69_I 134_L 1.138 0.77
159_I 163_C 1.136 0.77
334_E 367_K 1.133 0.77
137_V 153_M 1.132 0.77
344_V 400_V 1.132 0.77
197_V 232_V 1.13 0.77
173_L 216_V 1.122 0.76
64_Q 67_S 1.119 0.76
251_F 400_V 1.117 0.75
338_L 342_L 1.115 0.75
79_T 92_V 1.112 0.75
268_G 308_R 1.112 0.75
273_T 278_R 1.111 0.75
13_E 33_T 1.108 0.75
312_V 318_V 1.107 0.74
191_P 267_L 1.104 0.74
314_I 376_A 1.102 0.74
398_G 430_P 1.096 0.73
296_S 389_P 1.095 0.73
205_T 264_V 1.094 0.73
81_F 270_F 1.091 0.73
156_E 161_Q 1.09 0.73
290_R 298_S 1.088 0.73
82_K 279_E 1.087 0.73
114_Q 421_K 1.085 0.72
76_R 272_M 1.084 0.72
206_R 210_T 1.081 0.72
449_K 452_D 1.08 0.72
69_I 150_N 1.076 0.71
184_M 200_T 1.07 0.71
370_E 415_R 1.068 0.71
79_T 85_D 1.068 0.71
67_S 149_D 1.067 0.71
237_I 240_S 1.062 0.70
201_A 236_C 1.061 0.70
176_I 179_I 1.052 0.69
425_R 443_Q 1.051 0.69
65_K 152_N 1.049 0.69
397_F 427_A 1.047 0.68
83_E 87_V 1.046 0.68
233_L 405_E 1.045 0.68
349_G 450_L 1.04 0.68
81_F 115_T 1.038 0.68
231_K 234_E 1.034 0.67
86_R 283_P 1.034 0.67
269_V 331_V 1.033 0.67
98_I 173_L 1.031 0.67
25_C 31_W 1.029 0.67
287_F 302_V 1.027 0.66
189_S 195_A 1.027 0.66
86_R 268_G 1.027 0.66
159_I 166_A 1.026 0.66
329_V 340_I 1.024 0.66
84_F 243_L 1.02 0.66
397_F 409_V 1.017 0.65
199_E 347_R 1.016 0.65
106_A 240_S 1.012 0.65
204_L 215_I 1.012 0.65
351_L 382_V 1.012 0.65
65_K 150_N 1.008 0.64
163_C 203_Y 1.007 0.64
323_M 346_H 1.004 0.64
189_S 193_S 1.002 0.64
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
1tf7A60.68911000.813Contact Map0.513
3k1jA20.90431000.815Contact Map0.647
1n0wA10.45221000.816Contact Map0.514
2dr3A60.4631000.821Contact Map0.553
3bs4A10.44571000.823Contact Map0.391
1nlfA30.4871000.825Contact Map0.478
3m6aA60.88911000.826Contact Map0.57
2cvhA20.43481000.832Contact Map0.555
3hr8A10.65651000.834Contact Map0.452
1z0wA10.38261000.839Contact Map0.79
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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