| btk |
| ID: | 1480516515 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 359 (353) | ||
| Sequences: | 2436 (1614.3) | ||
| Seq/Len: | 6.901 | ||
| Nf(neff/√len): | 85.9 |
HHblits Results: (2016_02)
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: 6.901).
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 |
| 202_C | 287_M | 4.337 | 1.00 |
| 209_M | 222_L | 3.377 | 1.00 |
| 335_H | 340_E | 3.349 | 1.00 |
| 337_K | 340_E | 3.006 | 1.00 |
| 119_G | 129_I | 2.944 | 1.00 |
| 208_A | 237_V | 2.869 | 1.00 |
| 209_M | 344_F | 2.713 | 1.00 |
| 299_E | 316_L | 2.684 | 1.00 |
| 106_K | 118_Y | 2.615 | 1.00 |
| 329_I | 347_L | 2.342 | 1.00 |
| 332_S | 350_N | 2.327 | 1.00 |
| 202_C | 290_I | 2.249 | 1.00 |
| 118_Y | 126_D | 2.186 | 1.00 |
| 153_S | 159_Q | 2.161 | 1.00 |
| 97_I | 173_I | 2.145 | 1.00 |
| 280_I | 344_F | 2.055 | 1.00 |
| 158_V | 177_M | 2.032 | 1.00 |
| 344_F | 347_L | 2.032 | 1.00 |
| 175_E | 236_K | 2.030 | 1.00 |
| 200_E | 204_D | 2.027 | 1.00 |
| 104_F | 129_I | 2.024 | 1.00 |
| 221_D | 226_N | 2.020 | 1.00 |
| 294_G | 297_P | 1.993 | 1.00 |
| 227_C | 235_V | 1.963 | 1.00 |
| 221_D | 239_D | 1.932 | 1.00 |
| 109_G | 116_V | 1.918 | 1.00 |
| 119_G | 127_V | 1.908 | 1.00 |
| 111_G | 114_G | 1.852 | 1.00 |
| 116_V | 128_A | 1.850 | 1.00 |
| 107_E | 110_T | 1.845 | 1.00 |
| 111_G | 116_V | 1.845 | 1.00 |
| 264_S | 268_V | 1.842 | 1.00 |
| 152_L | 217_F | 1.749 | 1.00 |
| 107_E | 115_V | 1.743 | 1.00 |
| 315_R | 334_W | 1.737 | 1.00 |
| 182_L | 186_L | 1.703 | 1.00 |
| 309_H | 314_L | 1.687 | 1.00 |
| 127_V | 130_K | 1.676 | 1.00 |
| 213_E | 281_W | 1.672 | 1.00 |
| 329_I | 350_N | 1.639 | 1.00 |
| 8_D | 13_G | 1.615 | 1.00 |
| 220_R | 274_F | 1.607 | 1.00 |
| 221_D | 240_F | 1.574 | 1.00 |
| 224_A | 263_W | 1.554 | 0.99 |
| 240_F | 243_S | 1.495 | 0.99 |
| 158_V | 175_E | 1.480 | 0.99 |
| 209_M | 213_E | 1.463 | 0.99 |
| 118_Y | 176_Y | 1.460 | 0.99 |
| 209_M | 237_V | 1.458 | 0.99 |
| 226_N | 239_D | 1.453 | 0.99 |
| 330_M | 334_W | 1.450 | 0.99 |
| 285_V | 316_L | 1.447 | 0.99 |
| 244_R | 251_Y | 1.444 | 0.99 |
| 302_T | 305_E | 1.436 | 0.99 |
| 61_Y | 67_A | 1.434 | 0.99 |
| 274_F | 278_S | 1.418 | 0.99 |
| 228_L | 238_S | 1.401 | 0.99 |
| 268_V | 274_F | 1.397 | 0.99 |
| 324_E | 328_T | 1.385 | 0.99 |
| 287_M | 290_I | 1.378 | 0.99 |
| 226_N | 240_F | 1.373 | 0.98 |
| 318_R | 327_Y | 1.362 | 0.98 |
| 332_S | 346_I | 1.357 | 0.98 |
| 146_A | 163_V | 1.348 | 0.98 |
| 322_A | 327_Y | 1.344 | 0.98 |
| 285_V | 298_Y | 1.341 | 0.98 |
| 205_V | 286_L | 1.336 | 0.98 |
| 206_C | 347_L | 1.330 | 0.98 |
| 222_L | 237_V | 1.323 | 0.98 |
| 151_N | 215_K | 1.304 | 0.98 |
| 228_L | 239_D | 1.303 | 0.98 |
| 201_M | 229_V | 1.299 | 0.98 |
| 318_R | 324_E | 1.299 | 0.98 |
| 195_T | 323_S | 1.298 | 0.98 |
| 6_V | 59_I | 1.281 | 0.97 |
| 127_V | 173_I | 1.279 | 0.97 |
| 120_K | 126_D | 1.268 | 0.97 |
| 9_S | 16_T | 1.265 | 0.97 |
| 316_L | 334_W | 1.261 | 0.97 |
| 213_E | 344_F | 1.260 | 0.97 |
| 145_E | 149_M | 1.260 | 0.97 |
| 143_I | 146_A | 1.246 | 0.97 |
| 5_I | 8_D | 1.244 | 0.97 |
| 40_P | 43_Q | 1.243 | 0.97 |
| 4_F | 7_R | 1.241 | 0.97 |
| 206_C | 348_L | 1.240 | 0.97 |
| 224_A | 286_L | 1.239 | 0.97 |
| 210_E | 345_K | 1.238 | 0.97 |
| 210_E | 348_L | 1.231 | 0.96 |
| 206_C | 283_F | 1.230 | 0.96 |
| 130_K | 145_E | 1.226 | 0.96 |
| 228_L | 241_G | 1.217 | 0.96 |
| 96_E | 165_T | 1.214 | 0.96 |
| 338_A | 341_R | 1.214 | 0.96 |
| 16_T | 35_V | 1.212 | 0.96 |
| 205_V | 227_C | 1.210 | 0.96 |
| 145_E | 221_D | 1.208 | 0.96 |
| 259_F | 264_S | 1.202 | 0.96 |
| 2_G | 7_R | 1.201 | 0.96 |
| 227_C | 286_L | 1.199 | 0.96 |
| 110_T | 133_K | 1.183 | 0.95 |
| 101_D | 122_R | 1.182 | 0.95 |
| 295_K | 299_E | 1.181 | 0.95 |
| 301_F | 305_E | 1.175 | 0.95 |
| 128_A | 145_E | 1.170 | 0.95 |
| 314_L | 317_Y | 1.162 | 0.95 |
| 111_G | 145_E | 1.152 | 0.94 |
| 1_E | 21_A | 1.152 | 0.94 |
| 306_T | 310_I | 1.147 | 0.94 |
| 43_Q | 53_S | 1.143 | 0.94 |
| 105_L | 120_K | 1.135 | 0.94 |
| 116_V | 221_D | 1.133 | 0.94 |
| 52_F | 61_Y | 1.132 | 0.93 |
| 204_D | 235_V | 1.124 | 0.93 |
| 322_A | 330_M | 1.117 | 0.93 |
| 283_F | 287_M | 1.112 | 0.93 |
| 207_E | 348_L | 1.109 | 0.93 |
| 221_D | 241_G | 1.105 | 0.92 |
| 223_A | 260_P | 1.094 | 0.92 |
| 97_I | 102_L | 1.091 | 0.92 |
| 219_H | 226_N | 1.090 | 0.92 |
| 281_W | 294_G | 1.083 | 0.91 |
| 107_E | 117_K | 1.077 | 0.91 |
| 54_T | 57_E | 1.074 | 0.91 |
| 286_L | 290_I | 1.070 | 0.91 |
| 315_R | 336_E | 1.064 | 0.90 |
| 145_E | 240_F | 1.062 | 0.90 |
| 121_W | 127_V | 1.061 | 0.90 |
| 267_E | 279_D | 1.061 | 0.90 |
| 145_E | 154_H | 1.060 | 0.90 |
| 109_G | 114_G | 1.056 | 0.90 |
| 239_D | 260_P | 1.056 | 0.90 |
| 220_R | 240_F | 1.055 | 0.90 |
| 7_R | 18_S | 1.054 | 0.90 |
| 52_F | 62_H | 1.052 | 0.90 |
| 213_E | 276_S | 1.052 | 0.90 |
| 111_G | 130_K | 1.049 | 0.90 |
| 223_A | 262_R | 1.049 | 0.90 |
| 113_F | 116_V | 1.038 | 0.89 |
| 275_S | 278_S | 1.033 | 0.89 |
| 9_S | 18_S | 1.030 | 0.88 |
| 263_W | 297_P | 1.030 | 0.88 |
| 13_G | 16_T | 1.029 | 0.88 |
| 14_K | 22_K | 1.029 | 0.88 |
| 156_K | 207_E | 1.027 | 0.88 |
| 198_L | 293_L | 1.027 | 0.88 |
| 333_C | 342_P | 1.025 | 0.88 |
| 152_L | 275_S | 1.023 | 0.88 |
| 10_S | 14_K | 1.020 | 0.88 |
| 225_R | 260_P | 1.015 | 0.87 |
| 179_N | 230_N | 1.015 | 0.87 |
| 5_I | 10_S | 1.015 | 0.87 |
| 327_Y | 330_M | 1.015 | 0.87 |
| 132_I | 142_F | 1.014 | 0.87 |
| 319_P | 322_A | 1.013 | 0.87 |
| 154_H | 160_L | 1.010 | 0.87 |
| 229_V | 235_V | 1.007 | 0.87 |
| 181_C | 184_N | 1.007 | 0.87 |
| 201_M | 205_V | 1.006 | 0.87 |
| 177_M | 230_N | 1.002 | 0.86 |
| 99_P | 171_F | 1.002 | 0.86 |
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 | |
| 4xi2A | 1 | 0.9443 | 100 | 0.162 | Contact Map |
| 4fl3A | 1 | 0.922 | 100 | 0.185 | Contact Map |
| 2h8hA | 1 | 0.9861 | 100 | 0.204 | Contact Map |
| 1fmkA | 1 | 0.9471 | 100 | 0.206 | Contact Map |
| 1opkA | 1 | 0.9777 | 100 | 0.209 | Contact Map |
| 1qcfA | 1 | 0.9833 | 100 | 0.211 | Contact Map |
| 2ozoA | 1 | 0.9248 | 100 | 0.221 | Contact Map |
| 1k9aA | 6 | 0.9526 | 100 | 0.227 | Contact Map |
| 3cblA | 1 | 0.8942 | 100 | 0.244 | Contact Map |
| 4rt7A | 1 | 0 | 100 | 0.329 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)