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OPENSEQ.org
PRIM - DNA primase
UniProt: P0ABS5 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10239
Length: 581 (574)
Sequences: 1233
Seq/Len: 2.15
PRIM
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
66_A 76_N 4.026 1.00
210_D 214_R 3.867 1.00
216_I 244_Q 3.529 1.00
219_G 267_Y 3.154 1.00
40_C 64_C 3.003 1.00
40_C 43_H 3.002 1.00
344_E 348_T 3.002 1.00
32_Q 37_H 2.981 1.00
189_V 199_R 2.971 1.00
59_Y 76_N 2.965 1.00
126_F 167_N 2.792 1.00
43_H 64_C 2.76 1.00
120_M 238_I 2.729 1.00
37_H 51_T 2.69 1.00
228_P 231_L 2.643 1.00
344_E 352_K 2.59 1.00
166_D 170_K 2.537 1.00
17_T 93_H 2.519 1.00
116_L 238_I 2.513 1.00
206_F 246_Y 2.477 1.00
40_C 63_G 2.476 1.00
384_T 387_G 2.467 1.00
25_A 92_M 2.456 1.00
209_R 249_Y 2.456 1.00
219_G 285_L 2.455 1.00
27_V 38_A 2.439 1.00
160_F 202_E 2.415 1.00
144_E 150_H 2.358 1.00
164_G 167_N 2.345 1.00
12_D 16_R 2.315 1.00
143_L 204_V 2.302 1.00
43_H 63_G 2.285 1.00
260_R 280_Y 2.269 1.00
123_L 187_M 2.25 1.00
217_G 233_S 2.248 1.00
137_T 141_Q 2.193 1.00
22_L 70_A 2.189 1.00
123_L 168_V 2.179 1.00
209_R 250_E 2.145 1.00
261_L 297_L 2.108 0.99
29_L 52_V 2.097 0.99
45_E 63_G 2.09 0.99
284_S 308_Y 2.08 0.99
45_E 50_F 2.076 0.99
17_T 22_L 2.072 0.99
349_L 353_E 2.054 0.99
370_A 414_E 2.054 0.99
152_V 275_Q 2.024 0.99
140_R 144_E 2.021 0.99
139_A 204_V 2.01 0.99
185_A 188_L 2.007 0.99
14_L 70_A 1.991 0.99
124_N 157_A 1.98 0.99
150_H 153_I 1.957 0.99
316_D 320_R 1.94 0.99
366_M 374_N 1.936 0.99
197_Y 201_R 1.93 0.99
60_H 65_G 1.929 0.99
9_F 13_L 1.914 0.99
353_E 361_R 1.885 0.99
141_Q 145_K 1.871 0.98
34_K 55_E 1.87 0.98
312_R 316_D 1.842 0.98
26_R 78_D 1.836 0.98
115_T 181_S 1.826 0.98
255_N 261_L 1.823 0.98
60_H 67_H 1.817 0.98
267_Y 285_L 1.79 0.98
340_L 361_R 1.783 0.98
53_N 56_K 1.764 0.97
120_M 217_G 1.742 0.97
112_Q 184_D 1.739 0.97
35_N 53_N 1.714 0.97
124_N 215_V 1.704 0.97
87_E 99_F 1.693 0.97
165_W 201_R 1.686 0.96
155_R 279_N 1.681 0.96
26_R 77_Y 1.679 0.96
18_D 54_G 1.673 0.96
59_Y 66_A 1.658 0.96
260_R 303_N 1.633 0.96
128_Q 157_A 1.624 0.95
149_S 152_V 1.62 0.95
264_V 281_A 1.615 0.95
505_E 508_R 1.611 0.95
16_R 95_L 1.61 0.95
239_F 285_L 1.604 0.95
138_S 202_E 1.603 0.95
150_H 154_A 1.601 0.95
550_R 570_E 1.596 0.95
310_G 344_E 1.593 0.95
9_F 98_P 1.593 0.95
199_R 231_L 1.565 0.94
356_E 360_A 1.561 0.94
140_R 153_I 1.54 0.93
148_L 268_M 1.525 0.93
35_N 58_F 1.525 0.93
222_V 227_T 1.518 0.93
13_L 71_I 1.517 0.93
50_F 63_G 1.517 0.93
254_D 279_N 1.514 0.93
355_K 359_E 1.511 0.92
222_V 226_D 1.511 0.92
184_D 237_D 1.5 0.92
35_N 51_T 1.497 0.92
199_R 234_P 1.483 0.92
140_R 150_H 1.476 0.91
373_F 395_A 1.472 0.91
379_Q 394_L 1.466 0.91
185_A 236_T 1.464 0.91
242_G 293_H 1.454 0.90
20_V 36_F 1.45 0.90
307_C 358_F 1.437 0.90
377_M 418_K 1.434 0.90
303_N 334_Q 1.422 0.89
117_Y 214_R 1.421 0.89
191_N 195_R 1.417 0.89
408_R 412_R 1.416 0.89
247_G 250_E 1.413 0.89
47_T 50_F 1.41 0.89
278_I 350_V 1.403 0.88
122_G 175_N 1.402 0.88
53_N 58_F 1.391 0.88
165_W 197_Y 1.385 0.87
541_H 544_D 1.369 0.87
14_L 69_N 1.367 0.86
38_A 52_V 1.365 0.86
17_T 21_D 1.365 0.86
124_N 128_Q 1.365 0.86
284_S 293_H 1.356 0.86
121_D 157_A 1.354 0.86
305_I 338_M 1.344 0.85
47_T 63_G 1.329 0.84
273_L 358_F 1.329 0.84
298_F 333_R 1.327 0.84
137_T 140_R 1.323 0.84
270_V 310_G 1.318 0.84
550_R 553_E 1.318 0.84
81_E 84_E 1.309 0.83
247_G 274_A 1.308 0.83
395_A 415_L 1.305 0.83
117_Y 238_I 1.304 0.83
171_R 175_N 1.301 0.82
208_I 285_L 1.297 0.82
14_L 71_I 1.296 0.82
380_V 394_L 1.286 0.81
208_I 219_G 1.286 0.81
24_D 28_K 1.284 0.81
120_M 233_S 1.272 0.81
310_G 341_P 1.27 0.80
264_V 273_L 1.265 0.80
157_A 209_R 1.264 0.80
13_L 95_L 1.258 0.79
161_A 205_M 1.251 0.79
243_R 292_D 1.248 0.79
338_M 361_R 1.246 0.79
183_I 190_T 1.245 0.78
490_N 494_S 1.241 0.78
72_D 76_N 1.241 0.78
26_R 73_F 1.239 0.78
280_Y 359_E 1.237 0.78
303_N 336_R 1.234 0.78
180_Q 184_D 1.234 0.78
61_C 64_C 1.233 0.78
381_D 387_G 1.231 0.77
128_Q 154_A 1.226 0.77
132_Q 140_R 1.224 0.77
284_S 306_C 1.219 0.76
136_A 204_V 1.219 0.76
533_Q 537_D 1.218 0.76
360_A 364_Q 1.217 0.76
120_M 185_A 1.212 0.76
29_L 38_A 1.209 0.76
149_S 275_Q 1.197 0.75
325_A 335_L 1.195 0.74
60_H 66_A 1.194 0.74
219_G 231_L 1.193 0.74
148_L 206_F 1.19 0.74
46_K 63_G 1.19 0.74
46_K 50_F 1.187 0.74
5_I 86_V 1.185 0.74
127_Y 167_N 1.183 0.73
242_G 290_T 1.183 0.73
18_D 21_D 1.178 0.73
60_H 63_G 1.174 0.73
376_L 395_A 1.173 0.72
9_F 95_L 1.17 0.72
189_V 231_L 1.168 0.72
182_L 188_L 1.168 0.72
186_G 236_T 1.16 0.71
122_G 177_E 1.157 0.71
222_V 225_N 1.156 0.71
58_F 67_H 1.155 0.71
551_Q 555_I 1.154 0.71
161_A 202_E 1.149 0.70
126_F 162_P 1.147 0.70
35_N 56_K 1.144 0.70
51_T 69_N 1.137 0.69
323_E 401_Q 1.134 0.69
155_R 250_E 1.125 0.68
74_L 88_E 1.121 0.67
246_Y 270_V 1.121 0.67
40_C 61_C 1.12 0.67
116_L 185_A 1.12 0.67
189_V 197_Y 1.116 0.67
242_G 292_D 1.112 0.67
132_Q 150_H 1.108 0.66
262_L 318_A 1.108 0.66
80_L 88_E 1.104 0.66
173_G 179_R 1.098 0.65
143_L 153_I 1.086 0.64
245_L 304_V 1.083 0.64
564_S 567_E 1.08 0.63
183_I 196_S 1.08 0.63
82_F 86_V 1.077 0.63
39_C 45_E 1.07 0.62
7_R 67_H 1.07 0.62
224_G 228_P 1.069 0.62
156_F 246_Y 1.069 0.62
23_I 77_Y 1.062 0.61
244_Q 285_L 1.056 0.61
2_A 34_K 1.054 0.60
204_V 225_N 1.052 0.60
347_D 358_F 1.051 0.60
347_D 351_R 1.051 0.60
233_S 236_T 1.048 0.60
163_P 202_E 1.048 0.60
276_Y 355_K 1.047 0.60
63_G 66_A 1.044 0.59
247_G 285_L 1.044 0.59
259_N 302_N 1.042 0.59
33_G 52_V 1.041 0.59
51_T 58_F 1.041 0.59
200_F 205_M 1.041 0.59
160_F 223_L 1.041 0.59
24_D 39_C 1.04 0.59
260_R 363_E 1.037 0.59
10_I 86_V 1.037 0.59
148_L 153_I 1.036 0.58
29_L 33_G 1.035 0.58
20_V 31_K 1.034 0.58
158_I 271_V 1.029 0.58
569_L 572_W 1.025 0.57
114_Q 118_Q 1.022 0.57
129_Q 133_Q 1.02 0.57
138_S 141_Q 1.019 0.57
121_D 125_T 1.016 0.56
350_V 358_F 1.016 0.56
161_A 239_F 1.012 0.56
71_I 86_V 1.012 0.56
12_D 15_A 1.01 0.56
344_E 353_E 1.005 0.55
188_L 198_D 1.002 0.55
51_T 74_L 1.001 0.55
261_L 301_T 1 0.54
270_V 281_A 1 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
2au3A10.69881000.369Contact Map0.622
1dd9A10.58181000.528Contact Map0.704
4edgA10.55591000.546Contact Map0.744
1nuiA20.42691000.771Contact Map0.509
1q57A70.61791000.801Contact Map0.425
1d0qA20.17731000.804Contact Map0.594
1t6t120.19971000.856Contact Map0.459
1t3wA20.254799.40.924Contact Map0.946
2fcjA30.196298.70.943Contact Map0.444
2r6aC10.232498.70.944Contact Map0.597
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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