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OPENSEQ.org
DPO4 - DNA polymerase IV
UniProt: Q47155 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13141
Length: 351 (345)
Sequences: 3904
Seq/Len: 11.32
DPO4
Paralog alert: 0.64 [within 20: 0.02] - ratio of genomes with paralogs
Cluster includes: DPO4 UMUC
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
92_R 129_T 3.924 1.00
92_R 133_E 3.081 1.00
129_T 133_E 2.983 1.00
20_D 78_A 2.893 1.00
30_A 69_L 2.805 1.00
26_D 47_P 2.704 1.00
179_A 189_A 2.69 1.00
244_G 335_H 2.622 1.00
98_E 146_K 2.565 1.00
9_M 138_A 2.563 1.00
18_M 45_N 2.484 1.00
255_H 258_E 2.462 1.00
193_E 198_R 2.393 1.00
128_Q 132_N 2.345 1.00
75_R 78_A 2.31 1.00
131_F 159_N 2.306 1.00
9_M 136_L 2.292 1.00
127_R 159_N 2.247 1.00
94_T 107_L 2.233 1.00
82_A 85_H 2.227 1.00
130_I 138_A 2.222 1.00
59_T 71_L 2.216 1.00
125_E 129_T 2.191 1.00
93_Y 129_T 2.165 1.00
5_I 109_V 2.128 1.00
197_L 203_V 2.119 1.00
223_W 227_Q 2.116 1.00
195_M 214_R 2.099 1.00
174_Q 204_Q 2.097 1.00
198_R 202_D 2.073 1.00
91_S 97_I 2.055 1.00
260_E 317_R 2.055 1.00
197_L 206_C 1.987 1.00
179_A 193_E 1.923 1.00
148_L 164_I 1.921 1.00
20_D 75_R 1.901 1.00
27_I 70_T 1.868 1.00
106_Y 182_P 1.818 1.00
201_G 205_K 1.805 1.00
165_T 168_E 1.794 1.00
30_A 71_L 1.791 1.00
280_D 336_V 1.789 1.00
19_R 82_A 1.773 1.00
212_L 220_R 1.767 1.00
87_R 105_A 1.767 1.00
9_M 86_I 1.753 1.00
174_Q 201_G 1.745 1.00
14_A 18_M 1.714 1.00
61_M 65_L 1.71 1.00
245_V 270_L 1.702 1.00
274_L 336_V 1.692 1.00
219_G 223_W 1.669 1.00
224_E 229_I 1.668 1.00
127_R 161_Q 1.666 1.00
291_K 297_Q 1.656 1.00
142_V 161_Q 1.645 1.00
267_Y 334_L 1.641 1.00
122_I 126_I 1.633 1.00
190_A 194_A 1.632 1.00
21_N 24_L 1.612 1.00
100_L 106_Y 1.609 1.00
346_Q 349_L 1.588 1.00
221_I 225_R 1.583 1.00
316_A 319_T 1.563 1.00
208_L 220_R 1.545 1.00
143_A 148_L 1.54 1.00
14_A 29_I 1.525 1.00
5_I 140_A 1.512 1.00
90_F 107_L 1.499 1.00
30_A 53_V 1.498 1.00
144_P 169_V 1.473 1.00
316_A 320_W 1.472 1.00
187_V 190_A 1.463 1.00
89_I 133_E 1.457 1.00
124_Q 128_Q 1.448 1.00
123_A 140_A 1.441 1.00
78_A 81_E 1.439 1.00
195_M 215_F 1.432 1.00
16_V 78_A 1.424 1.00
58_P 61_M 1.418 1.00
168_E 171_A 1.416 1.00
142_V 163_V 1.41 1.00
93_Y 125_E 1.407 0.99
208_L 224_E 1.405 0.99
6_H 153_S 1.404 0.99
124_Q 127_R 1.389 0.99
96_R 236_S 1.381 0.99
30_A 41_I 1.374 0.99
24_L 29_I 1.37 0.99
170_P 174_Q 1.36 0.99
78_A 82_A 1.346 0.99
16_V 82_A 1.341 0.99
51_F 68_H 1.334 0.99
47_P 50_K 1.327 0.99
246_E 289_K 1.322 0.99
7_V 90_F 1.321 0.99
61_M 64_K 1.312 0.99
109_V 122_I 1.312 0.99
220_R 224_E 1.294 0.99
18_M 47_P 1.292 0.99
191_K 214_R 1.29 0.99
29_I 72_L 1.276 0.99
18_M 25_R 1.27 0.99
7_V 138_A 1.268 0.99
251_E 258_E 1.263 0.99
271_E 275_A 1.262 0.99
81_E 85_H 1.262 0.99
256_W 317_R 1.247 0.99
17_E 79_Y 1.244 0.98
32_G 39_G 1.236 0.98
206_C 210_M 1.228 0.98
93_Y 126_I 1.228 0.98
57_M 65_L 1.228 0.98
17_E 75_R 1.227 0.98
44_A 55_S 1.224 0.98
41_I 44_A 1.224 0.98
274_L 280_D 1.224 0.98
170_P 204_Q 1.223 0.98
11_C 15_A 1.222 0.98
189_A 193_E 1.222 0.98
253_I 258_E 1.214 0.98
156_N 162_F 1.211 0.98
211_L 223_W 1.207 0.98
146_K 234_V 1.207 0.98
42_S 74_G 1.203 0.98
206_C 211_L 1.193 0.98
284_A 288_V 1.19 0.98
19_R 78_A 1.186 0.98
151_I 176_L 1.186 0.98
282_L 337_T 1.182 0.98
216_G 219_G 1.163 0.97
155_M 162_F 1.163 0.97
112_S 122_I 1.163 0.97
199_T 202_D 1.161 0.97
315_T 319_T 1.154 0.97
249_M 253_I 1.146 0.97
254_H 328_G 1.138 0.97
19_R 135_Q 1.137 0.97
249_M 262_I 1.137 0.97
76_F 80_K 1.135 0.97
312_L 315_T 1.134 0.97
262_I 265_R 1.131 0.97
256_W 260_E 1.127 0.97
123_A 142_V 1.127 0.97
90_F 105_A 1.126 0.97
32_G 59_T 1.122 0.97
152_A 164_I 1.122 0.97
88_E 91_S 1.12 0.96
89_I 130_I 1.12 0.96
201_G 204_Q 1.116 0.96
181_I 200_C 1.112 0.96
253_I 259_C 1.11 0.96
178_L 197_L 1.109 0.96
280_D 283_I 1.106 0.96
7_V 107_L 1.103 0.96
51_F 66_C 1.091 0.96
43_T 49_R 1.089 0.96
197_L 202_D 1.087 0.96
5_I 123_A 1.087 0.96
302_H 318_K 1.078 0.95
281_L 337_T 1.077 0.95
210_M 214_R 1.076 0.95
12_F 16_V 1.075 0.95
53_V 69_L 1.074 0.95
270_L 336_V 1.072 0.95
263_I 288_V 1.068 0.95
112_S 115_C 1.066 0.95
2_R 110_T 1.064 0.95
204_Q 227_Q 1.064 0.95
18_M 29_I 1.063 0.95
147_F 225_R 1.062 0.95
202_D 205_K 1.048 0.94
120_T 163_V 1.046 0.94
207_D 210_M 1.046 0.94
118_S 121_L 1.042 0.94
100_L 182_P 1.04 0.94
89_I 93_Y 1.04 0.94
26_D 45_N 1.038 0.94
89_I 129_T 1.038 0.94
208_L 212_L 1.027 0.94
190_A 193_E 1.02 0.93
312_L 316_A 1.015 0.93
177_P 180_K 1.01 0.93
30_A 66_C 1.008 0.93
31_I 72_L 1.008 0.93
90_F 126_I 1.006 0.93
270_L 334_L 1.004 0.93
99_P 102_L 1.002 0.92
89_I 134_L 1.002 0.92
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
4irkB20.96011000.016Contact Map0.798
4dezA10.98011000.019Contact Map0.683
4f4yA20.97151000.035Contact Map0.833
1jx4A10.97441000.046Contact Map0.781
3gqcA40.98011000.05Contact Map0.779
3pzpA20.96581000.057Contact Map0.768
1t94A20.96011000.068Contact Map0.8
3osnA10.96011000.076Contact Map0.745
3mfiA10.9631000.08Contact Map0.679
2aq4A10.96011000.081Contact Map0.712
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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