| A2AR_LABOS_1e_40_iter2 |
| ID: | 1427846131 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 310 (281) | ||
| Sequences: | 6773 (4130.9) | ||
| Seq/Len: | 24.103 | ||
| Nf(neff/√len): | 246.4 |
HHblits Results: (2013_03)
Sequences per length for each position, BEFORE the coverage/gap filter was applied
Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 24.103).
Sequences per length for each position, AFTER the coverage/gap filter was applied
Residue pairs sorted by coevolution strength:
Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.
| i | j | Scaled score | Prob |
| 46_T | 82_A | 4.965 | 1.00 |
| 203_L | 207_R | 3.180 | 1.00 |
| 103_V | 107_I | 2.782 | 1.00 |
| 131_Y | 136_Q | 2.757 | 1.00 |
| 98_W | 101_G | 2.757 | 1.00 |
| 125_A | 155_V | 2.552 | 1.00 |
| 73_S | 122_H | 2.548 | 1.00 |
| 102_K | 106_G | 2.485 | 1.00 |
| 260_C | 263_Y | 2.469 | 1.00 |
| 207_R | 210_Q | 2.361 | 1.00 |
| 110_A | 114_L | 2.238 | 1.00 |
| 57_V | 72_V | 2.189 | 1.00 |
| 242_V | 286_I | 2.171 | 1.00 |
| 125_A | 151_I | 1.980 | 1.00 |
| 205_Y | 208_I | 1.892 | 1.00 |
| 129_D | 143_R | 1.889 | 1.00 |
| 33_A | 37_A | 1.876 | 1.00 |
| 65_A | 68_N | 1.844 | 1.00 |
| 69_L | 152_I | 1.844 | 1.00 |
| 73_S | 156_W | 1.781 | 1.00 |
| 150_C | 154_I | 1.774 | 1.00 |
| 63_L | 68_N | 1.760 | 1.00 |
| 51_I | 79_I | 1.733 | 1.00 |
| 247_W | 276_G | 1.683 | 1.00 |
| 200_I | 204_V | 1.678 | 1.00 |
| 149_K | 153_V | 1.675 | 1.00 |
| 131_Y | 207_R | 1.668 | 1.00 |
| 164_S | 168_L | 1.613 | 1.00 |
| 131_Y | 135_T | 1.606 | 1.00 |
| 54_V | 72_V | 1.603 | 1.00 |
| 166_P | 169_S | 1.592 | 1.00 |
| 144_T | 147_R | 1.592 | 1.00 |
| 268_T | 272_F | 1.587 | 1.00 |
| 47_V | 79_I | 1.564 | 1.00 |
| 110_A | 167_L | 1.557 | 1.00 |
| 91_A | 100_F | 1.547 | 1.00 |
| 122_H | 152_I | 1.546 | 1.00 |
| 75_A | 78_D | 1.532 | 1.00 |
| 235_V | 290_F | 1.531 | 1.00 |
| 206_I | 210_Q | 1.509 | 1.00 |
| 46_T | 281_S | 1.508 | 1.00 |
| 146_K | 150_C | 1.486 | 1.00 |
| 47_V | 82_A | 1.483 | 1.00 |
| 51_I | 55_I | 1.474 | 1.00 |
| 237_A | 241_G | 1.471 | 1.00 |
| 201_M | 205_Y | 1.469 | 1.00 |
| 72_V | 76_T | 1.462 | 1.00 |
| 202_I | 206_I | 1.453 | 1.00 |
| 151_I | 155_V | 1.445 | 1.00 |
| 188_S | 192_A | 1.424 | 1.00 |
| 194_F | 248_F | 1.408 | 1.00 |
| 105_C | 177_C | 1.402 | 0.99 |
| 186_I | 189_S | 1.389 | 0.99 |
| 184_W | 188_S | 1.366 | 0.99 |
| 114_L | 160_A | 1.364 | 0.99 |
| 250_F | 254_Y | 1.357 | 0.99 |
| 283_N | 287_Y | 1.351 | 0.99 |
| 88_F | 104_W | 1.348 | 0.99 |
| 123_L | 201_M | 1.348 | 0.99 |
| 121_V | 158_I | 1.336 | 0.99 |
| 118_S | 159_S | 1.307 | 0.99 |
| 215_R | 219_I | 1.305 | 0.99 |
| 278_C | 282_L | 1.298 | 0.99 |
| 244_V | 248_F | 1.294 | 0.99 |
| 60_S | 297_A | 1.291 | 0.99 |
| 190_S | 255_S | 1.288 | 0.99 |
| 232_F | 235_V | 1.274 | 0.99 |
| 208_I | 212_A | 1.272 | 0.99 |
| 133_S | 137_A | 1.268 | 0.99 |
| 194_F | 198_C | 1.262 | 0.99 |
| 207_R | 211_V | 1.255 | 0.99 |
| 198_C | 244_V | 1.246 | 0.98 |
| 118_S | 122_H | 1.243 | 0.98 |
| 104_W | 107_I | 1.239 | 0.98 |
| 252_F | 256_L | 1.234 | 0.98 |
| 54_V | 57_V | 1.232 | 0.98 |
| 131_Y | 203_L | 1.219 | 0.98 |
| 133_S | 138_V | 1.197 | 0.98 |
| 101_G | 104_W | 1.197 | 0.98 |
| 250_F | 276_G | 1.192 | 0.98 |
| 111_L | 115_F | 1.190 | 0.98 |
| 129_D | 133_S | 1.184 | 0.98 |
| 57_V | 63_L | 1.181 | 0.98 |
| 53_V | 288_T | 1.168 | 0.97 |
| 154_I | 158_I | 1.166 | 0.97 |
| 296_R | 299_Q | 1.165 | 0.97 |
| 248_F | 252_F | 1.158 | 0.97 |
| 54_V | 79_I | 1.157 | 0.97 |
| 77_A | 119_S | 1.157 | 0.97 |
| 101_G | 105_C | 1.156 | 0.97 |
| 85_V | 89_S | 1.149 | 0.97 |
| 66_P | 148_V | 1.142 | 0.97 |
| 238_V | 286_I | 1.133 | 0.97 |
| 53_V | 57_V | 1.131 | 0.97 |
| 35_I | 39_V | 1.126 | 0.97 |
| 113_V | 163_S | 1.125 | 0.97 |
| 88_F | 108_Y | 1.120 | 0.96 |
| 299_Q | 303_C | 1.118 | 0.96 |
| 278_C | 281_S | 1.116 | 0.96 |
| 117_T | 193_S | 1.114 | 0.96 |
| 36_A | 90_L | 1.111 | 0.96 |
| 43_I | 90_L | 1.110 | 0.96 |
| 70_F | 148_V | 1.109 | 0.96 |
| 201_M | 240_M | 1.108 | 0.96 |
| 24_D | 27_Y | 1.105 | 0.96 |
| 209_Y | 212_A | 1.104 | 0.96 |
| 209_Y | 213_K | 1.097 | 0.96 |
| 121_V | 159_S | 1.095 | 0.96 |
| 233_T | 239_V | 1.088 | 0.96 |
| 77_A | 118_S | 1.084 | 0.96 |
| 38_L | 41_F | 1.082 | 0.96 |
| 69_L | 149_K | 1.078 | 0.95 |
| 286_I | 290_F | 1.075 | 0.95 |
| 49_G | 281_S | 1.072 | 0.95 |
| 273_F | 276_G | 1.070 | 0.95 |
| 53_V | 75_A | 1.067 | 0.95 |
| 36_A | 94_L | 1.064 | 0.95 |
| 91_A | 95_M | 1.063 | 0.95 |
| 190_S | 195_F | 1.060 | 0.95 |
| 238_V | 290_F | 1.060 | 0.95 |
| 81_V | 86_M | 1.059 | 0.95 |
| 172_S | 175_P | 1.057 | 0.95 |
| 273_F | 277_Y | 1.056 | 0.95 |
| 164_S | 167_L | 1.056 | 0.95 |
| 66_P | 70_F | 1.055 | 0.95 |
| 126_I | 129_D | 1.055 | 0.95 |
| 110_A | 160_A | 1.046 | 0.94 |
| 251_F | 254_Y | 1.043 | 0.94 |
| 112_D | 120_I | 1.042 | 0.94 |
| 71_L | 293_D | 1.042 | 0.94 |
| 58_L | 72_V | 1.041 | 0.94 |
| 169_S | 172_S | 1.040 | 0.94 |
| 53_V | 283_N | 1.040 | 0.94 |
| 52_L | 56_A | 1.039 | 0.94 |
| 198_C | 248_F | 1.039 | 0.94 |
| 121_V | 124_C | 1.038 | 0.94 |
| 266_P | 269_L | 1.037 | 0.94 |
| 95_M | 99_Y | 1.037 | 0.94 |
| 120_I | 243_F | 1.037 | 0.94 |
| 297_A | 300_K | 1.035 | 0.94 |
| 128_L | 204_V | 1.032 | 0.94 |
| 187_L | 191_M | 1.031 | 0.94 |
| 186_I | 190_S | 1.028 | 0.94 |
| 121_V | 240_M | 1.026 | 0.94 |
| 54_V | 75_A | 1.026 | 0.94 |
| 212_A | 216_K | 1.026 | 0.94 |
| 216_K | 219_I | 1.024 | 0.93 |
| 132_W | 142_K | 1.024 | 0.93 |
| 146_K | 149_K | 1.023 | 0.93 |
| 209_Y | 236_L | 1.014 | 0.93 |
| 235_V | 238_V | 1.006 | 0.93 |
| 183_T | 186_I | 1.006 | 0.93 |
| 61_R | 64_K | 1.004 | 0.93 |
| 60_S | 63_L | 1.004 | 0.93 |
| 24_D | 28_S | 1.003 | 0.93 |
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
- Text file of contact predictions (all 3L/2 predictions)
- Generate restraints for ROSETTA Structure Modeling
- Import to GREMLIN BETA - features includes ability to upload PDB and latest P(contact) calculation based on eLife 2015 fitting to PDB data.
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-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
| PDB | M | Cov | P(%) | HHΔ | |
| 2rh1A | 1 | 0.8903 | 100 | 0.273 | Contact Map |
| 3uonA | 1 | 0.8871 | 100 | 0.311 | Contact Map |
| 3pblA | 2 | 0.8677 | 100 | 0.313 | Contact Map |
| 4pxzA | 1 | 0.8613 | 100 | 0.313 | Contact Map |
| 2z73A | 2 | 0.9806 | 100 | 0.315 | Contact Map |
| 4u15A | 2 | 0.8871 | 100 | 0.321 | Contact Map |
| 3oduA | 2 | 0.929 | 100 | 0.321 | Contact Map |
| 3vw7A | 1 | 0.8677 | 100 | 0.326 | Contact Map |
| 3rzeA | 1 | 0.8742 | 100 | 0.328 | Contact Map |
| 4eiyA | 1 | 0.9032 | 100 | 0.333 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)