| ACTIVE-CT |
| ID: | 1510210884 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 407 (380) | ||
| Sequences: | 29181 (20478.7) | ||
| Seq/Len: | 76.792 | ||
| Nf(neff/√len): | 1050.5 |
Jackhmmer Results: (2016_04)
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: 76.792).
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 |
| 34_H | 109_D | 3.935 | 1.00 |
| 32_S | 35_Q | 3.650 | 1.00 |
| 27_K | 106_Y | 3.505 | 1.00 |
| 32_S | 36_D | 3.443 | 1.00 |
| 22_R | 25_E | 2.959 | 1.00 |
| 225_T | 272_E | 2.688 | 1.00 |
| 256_Q | 309_Y | 2.679 | 1.00 |
| 33_L | 38_I | 2.607 | 1.00 |
| 33_L | 40_V | 2.511 | 1.00 |
| 128_A | 132_H | 2.350 | 1.00 |
| 92_Q | 126_K | 2.291 | 1.00 |
| 350_D | 356_T | 2.282 | 1.00 |
| 347_E | 359_N | 2.278 | 1.00 |
| 257_A | 308_Y | 2.237 | 1.00 |
| 260_M | 313_I | 2.174 | 1.00 |
| 261_T | 346_Y | 2.172 | 1.00 |
| 314_H | 318_D | 2.172 | 1.00 |
| 307_N | 310_S | 2.165 | 1.00 |
| 28_E | 32_S | 2.110 | 1.00 |
| 23_I | 106_Y | 2.082 | 1.00 |
| 253_E | 308_Y | 2.049 | 1.00 |
| 349_S | 359_N | 1.950 | 1.00 |
| 56_D | 61_V | 1.950 | 1.00 |
| 26_F | 42_M | 1.924 | 1.00 |
| 27_K | 105_E | 1.896 | 1.00 |
| 345_A | 363_I | 1.883 | 1.00 |
| 49_T | 84_I | 1.880 | 1.00 |
| 7_N | 97_D | 1.876 | 1.00 |
| 93_K | 97_D | 1.831 | 1.00 |
| 100_K | 104_N | 1.818 | 1.00 |
| 30_V | 40_V | 1.814 | 1.00 |
| 26_F | 30_V | 1.790 | 1.00 |
| 31_L | 35_Q | 1.781 | 1.00 |
| 24_K | 27_K | 1.777 | 1.00 |
| 7_N | 98_S | 1.751 | 1.00 |
| 25_E | 28_E | 1.739 | 1.00 |
| 275_L | 305_V | 1.724 | 1.00 |
| 56_D | 59_K | 1.714 | 1.00 |
| 342_N | 367_N | 1.701 | 1.00 |
| 65_Y | 68_T | 1.693 | 1.00 |
| 347_E | 361_V | 1.677 | 1.00 |
| 177_N | 181_G | 1.675 | 1.00 |
| 94_F | 97_D | 1.647 | 1.00 |
| 254_L | 364_Y | 1.607 | 1.00 |
| 103_V | 138_I | 1.605 | 1.00 |
| 64_Y | 67_R | 1.603 | 1.00 |
| 26_F | 108_V | 1.590 | 1.00 |
| 224_V | 255_A | 1.583 | 1.00 |
| 319_H | 358_G | 1.578 | 1.00 |
| 29_M | 33_L | 1.560 | 1.00 |
| 171_F | 175_L | 1.556 | 1.00 |
| 63_E | 66_Y | 1.548 | 1.00 |
| 100_K | 130_Q | 1.517 | 1.00 |
| 346_Y | 362_V | 1.508 | 1.00 |
| 41_N | 110_G | 1.503 | 1.00 |
| 261_T | 362_V | 1.496 | 1.00 |
| 311_G | 314_H | 1.494 | 1.00 |
| 104_N | 134_I | 1.466 | 1.00 |
| 174_N | 177_N | 1.465 | 1.00 |
| 85_A | 88_R | 1.463 | 1.00 |
| 177_N | 180_D | 1.456 | 1.00 |
| 233_W | 252_D | 1.453 | 1.00 |
| 126_K | 130_Q | 1.451 | 1.00 |
| 319_H | 360_I | 1.448 | 1.00 |
| 7_N | 101_F | 1.444 | 1.00 |
| 291_V | 294_F | 1.432 | 1.00 |
| 258_I | 364_Y | 1.430 | 1.00 |
| 23_I | 101_F | 1.429 | 1.00 |
| 57_F | 61_V | 1.422 | 1.00 |
| 169_A | 172_N | 1.407 | 0.99 |
| 44_V | 99_L | 1.403 | 0.99 |
| 46_Y | 95_I | 1.403 | 0.99 |
| 130_Q | 134_I | 1.397 | 0.99 |
| 249_I | 253_E | 1.378 | 0.99 |
| 307_N | 311_G | 1.376 | 0.99 |
| 130_Q | 133_A | 1.373 | 0.99 |
| 350_D | 357_W | 1.369 | 0.99 |
| 15_T | 25_E | 1.366 | 0.99 |
| 178_G | 181_G | 1.360 | 0.99 |
| 89_P | 93_K | 1.359 | 0.99 |
| 306_F | 310_S | 1.349 | 0.99 |
| 46_Y | 98_S | 1.345 | 0.99 |
| 321_A | 360_I | 1.345 | 0.99 |
| 7_N | 94_F | 1.343 | 0.99 |
| 100_K | 134_I | 1.339 | 0.99 |
| 257_A | 312_L | 1.337 | 0.99 |
| 173_D | 177_N | 1.330 | 0.99 |
| 54_I | 57_F | 1.326 | 0.99 |
| 125_S | 129_T | 1.323 | 0.99 |
| 5_N | 8_V | 1.323 | 0.99 |
| 90_M | 93_K | 1.322 | 0.99 |
| 101_F | 106_Y | 1.314 | 0.99 |
| 52_T | 80_T | 1.304 | 0.99 |
| 170_V | 174_N | 1.299 | 0.99 |
| 115_L | 118_L | 1.293 | 0.99 |
| 51_A | 82_N | 1.288 | 0.99 |
| 382_I | 385_T | 1.282 | 0.99 |
| 173_D | 176_R | 1.272 | 0.99 |
| 253_E | 305_V | 1.269 | 0.99 |
| 8_V | 23_I | 1.268 | 0.99 |
| 289_D | 292_N | 1.265 | 0.99 |
| 176_R | 179_L | 1.265 | 0.99 |
| 24_K | 28_E | 1.265 | 0.99 |
| 310_S | 314_H | 1.263 | 0.99 |
| 170_V | 173_D | 1.260 | 0.99 |
| 324_M | 350_D | 1.252 | 0.99 |
| 172_N | 175_L | 1.251 | 0.99 |
| 279_G | 282_D | 1.249 | 0.99 |
| 168_V | 172_N | 1.245 | 0.98 |
| 33_L | 36_D | 1.243 | 0.98 |
| 101_F | 105_E | 1.235 | 0.98 |
| 84_I | 91_V | 1.231 | 0.98 |
| 27_K | 31_L | 1.231 | 0.98 |
| 177_N | 182_S | 1.228 | 0.98 |
| 86_A | 95_I | 1.227 | 0.98 |
| 124_M | 128_A | 1.226 | 0.98 |
| 175_L | 179_L | 1.222 | 0.98 |
| 126_K | 129_T | 1.221 | 0.98 |
| 72_G | 75_T | 1.219 | 0.98 |
| 198_L | 201_A | 1.218 | 0.98 |
| 171_F | 177_N | 1.218 | 0.98 |
| 328_N | 347_E | 1.217 | 0.98 |
| 223_Y | 226_S | 1.217 | 0.98 |
| 94_F | 98_S | 1.208 | 0.98 |
| 287_A | 291_V | 1.204 | 0.98 |
| 168_V | 171_F | 1.202 | 0.98 |
| 39_G | 109_D | 1.199 | 0.98 |
| 9_P | 26_F | 1.195 | 0.98 |
| 168_V | 173_D | 1.192 | 0.98 |
| 46_Y | 113_F | 1.181 | 0.98 |
| 54_I | 61_V | 1.173 | 0.98 |
| 42_M | 108_V | 1.171 | 0.98 |
| 174_N | 178_G | 1.169 | 0.97 |
| 321_A | 358_G | 1.164 | 0.97 |
| 326_T | 349_S | 1.156 | 0.97 |
| 96_I | 126_K | 1.156 | 0.97 |
| 54_I | 58_D | 1.155 | 0.97 |
| 207_E | 211_N | 1.145 | 0.97 |
| 99_L | 127_A | 1.143 | 0.97 |
| 218_G | 221_I | 1.141 | 0.97 |
| 175_L | 178_G | 1.139 | 0.97 |
| 176_R | 181_G | 1.138 | 0.97 |
| 164_K | 167_G | 1.137 | 0.97 |
| 124_M | 127_A | 1.134 | 0.97 |
| 58_D | 61_V | 1.133 | 0.97 |
| 55_S | 58_D | 1.132 | 0.97 |
| 56_D | 60_I | 1.132 | 0.97 |
| 107_H | 135_D | 1.128 | 0.97 |
| 74_Y | 77_G | 1.124 | 0.97 |
| 292_N | 295_D | 1.123 | 0.97 |
| 270_G | 294_F | 1.121 | 0.97 |
| 142_G | 146_T | 1.119 | 0.96 |
| 244_S | 247_D | 1.117 | 0.96 |
| 67_R | 79_G | 1.117 | 0.96 |
| 299_K | 306_F | 1.116 | 0.96 |
| 367_N | 371_E | 1.116 | 0.96 |
| 320_P | 324_M | 1.114 | 0.96 |
| 276_R | 295_D | 1.110 | 0.96 |
| 63_E | 67_R | 1.101 | 0.96 |
| 178_G | 182_S | 1.094 | 0.96 |
| 129_T | 133_A | 1.089 | 0.96 |
| 23_I | 27_K | 1.086 | 0.96 |
| 28_E | 31_L | 1.081 | 0.95 |
| 224_V | 259_V | 1.080 | 0.95 |
| 99_L | 111_F | 1.080 | 0.95 |
| 57_F | 60_I | 1.074 | 0.95 |
| 335_Q | 347_E | 1.070 | 0.95 |
| 172_N | 176_R | 1.070 | 0.95 |
| 26_F | 29_M | 1.066 | 0.95 |
| 131_L | 138_I | 1.064 | 0.95 |
| 217_P | 220_T | 1.062 | 0.95 |
| 253_E | 304_D | 1.061 | 0.95 |
| 128_A | 134_I | 1.057 | 0.95 |
| 176_R | 180_D | 1.056 | 0.95 |
| 169_A | 173_D | 1.056 | 0.95 |
| 60_I | 64_Y | 1.056 | 0.95 |
| 64_Y | 68_T | 1.054 | 0.95 |
| 122_D | 125_S | 1.053 | 0.95 |
| 300_A | 307_N | 1.049 | 0.94 |
| 174_N | 179_L | 1.049 | 0.94 |
| 190_G | 193_T | 1.045 | 0.94 |
| 96_I | 130_Q | 1.045 | 0.94 |
| 187_S | 192_A | 1.043 | 0.94 |
| 167_G | 170_V | 1.042 | 0.94 |
| 76_N | 79_G | 1.042 | 0.94 |
| 232_L | 236_I | 1.041 | 0.94 |
| 225_T | 232_L | 1.040 | 0.94 |
| 62_P | 66_Y | 1.036 | 0.94 |
| 62_P | 67_R | 1.035 | 0.94 |
| 15_T | 22_R | 1.034 | 0.94 |
| 200_D | 204_N | 1.030 | 0.94 |
| 190_G | 194_G | 1.025 | 0.93 |
| 268_M | 309_Y | 1.025 | 0.93 |
| 313_I | 317_L | 1.024 | 0.93 |
| 201_A | 204_N | 1.024 | 0.93 |
| 350_D | 358_G | 1.017 | 0.93 |
| 123_T | 127_A | 1.007 | 0.93 |
| 179_L | 182_S | 1.004 | 0.93 |
| 128_A | 131_L | 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 | |
| 3wdhA | 1 | 0.9828 | 100 | 0.24 | Contact Map |
| 2wanA | 1 | 0.9926 | 100 | 0.24 | Contact Map |
| 2e8yA | 2 | 0.9951 | 100 | 0.248 | Contact Map |
| 1ea9C | 2 | 0.8649 | 100 | 0.303 | Contact Map |
| 1j0hA | 2 | 0.8649 | 100 | 0.306 | Contact Map |
| 1bf2A | 1 | 0.9558 | 100 | 0.308 | Contact Map |
| 3fawA | 1 | 0.9828 | 100 | 0.312 | Contact Map |
| 4aeeA | 2 | 0.8231 | 100 | 0.313 | Contact Map |
| 2vr5A | 2 | 0.9607 | 100 | 0.313 | Contact Map |
| 1wzlA | 2 | 0.8624 | 100 | 0.313 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)