| btk-all_e04 |
| ID: | 1480596792 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 379 (377) | ||
| Sequences: | 2044 (1353.2) | ||
| Seq/Len: | 5.422 | ||
| Nf(neff/√len): | 69.7 |
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: 5.422).
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 |
| 222_C | 307_M | 3.994 | 1.00 |
| 355_H | 360_E | 3.373 | 1.00 |
| 229_M | 242_L | 3.188 | 1.00 |
| 139_G | 149_I | 3.164 | 1.00 |
| 126_K | 138_Y | 2.762 | 1.00 |
| 357_K | 360_E | 2.728 | 1.00 |
| 319_E | 336_L | 2.666 | 1.00 |
| 228_A | 257_V | 2.565 | 1.00 |
| 229_M | 364_F | 2.539 | 1.00 |
| 138_Y | 146_D | 2.324 | 1.00 |
| 241_D | 259_D | 2.259 | 1.00 |
| 124_F | 149_I | 2.231 | 1.00 |
| 241_D | 246_N | 2.207 | 1.00 |
| 131_G | 136_V | 2.162 | 1.00 |
| 284_S | 288_V | 2.076 | 1.00 |
| 222_C | 310_I | 2.069 | 1.00 |
| 131_G | 134_G | 2.002 | 1.00 |
| 264_R | 271_Y | 1.992 | 1.00 |
| 129_G | 136_V | 1.938 | 1.00 |
| 220_E | 224_D | 1.934 | 1.00 |
| 352_S | 370_N | 1.913 | 1.00 |
| 127_E | 130_T | 1.900 | 1.00 |
| 147_V | 150_K | 1.899 | 1.00 |
| 127_E | 135_V | 1.885 | 1.00 |
| 202_L | 206_L | 1.885 | 1.00 |
| 247_C | 255_V | 1.859 | 1.00 |
| 173_S | 179_Q | 1.855 | 1.00 |
| 172_L | 237_F | 1.823 | 1.00 |
| 349_I | 367_L | 1.813 | 1.00 |
| 233_E | 301_W | 1.806 | 1.00 |
| 335_R | 354_W | 1.803 | 1.00 |
| 314_G | 317_P | 1.787 | 1.00 |
| 81_Y | 87_A | 1.774 | 1.00 |
| 364_F | 367_L | 1.768 | 1.00 |
| 117_I | 193_I | 1.737 | 1.00 |
| 322_T | 325_E | 1.673 | 1.00 |
| 242_L | 257_V | 1.669 | 1.00 |
| 329_H | 334_L | 1.667 | 1.00 |
| 195_E | 256_K | 1.642 | 0.99 |
| 352_S | 366_I | 1.638 | 0.99 |
| 300_I | 364_F | 1.598 | 0.99 |
| 166_A | 169_M | 1.591 | 0.99 |
| 241_D | 260_F | 1.573 | 0.99 |
| 165_E | 169_M | 1.553 | 0.99 |
| 338_R | 347_Y | 1.519 | 0.99 |
| 246_N | 259_D | 1.514 | 0.99 |
| 136_V | 148_A | 1.513 | 0.99 |
| 350_M | 354_W | 1.513 | 0.99 |
| 150_K | 165_E | 1.483 | 0.99 |
| 171_N | 235_K | 1.474 | 0.99 |
| 28_D | 33_G | 1.465 | 0.98 |
| 294_F | 298_S | 1.447 | 0.98 |
| 349_I | 370_N | 1.435 | 0.98 |
| 225_V | 306_L | 1.429 | 0.98 |
| 338_R | 344_E | 1.408 | 0.98 |
| 321_F | 325_E | 1.406 | 0.98 |
| 305_V | 336_L | 1.367 | 0.97 |
| 233_E | 364_F | 1.365 | 0.97 |
| 287_E | 299_D | 1.355 | 0.97 |
| 8_R | 27_R | 1.352 | 0.97 |
| 229_M | 233_E | 1.352 | 0.97 |
| 228_A | 242_L | 1.352 | 0.97 |
| 8_R | 29_S | 1.349 | 0.97 |
| 72_F | 81_Y | 1.348 | 0.97 |
| 246_N | 260_F | 1.336 | 0.97 |
| 138_Y | 196_Y | 1.335 | 0.97 |
| 226_C | 368_L | 1.332 | 0.97 |
| 7_T | 11_A | 1.326 | 0.97 |
| 88_G | 93_L | 1.318 | 0.96 |
| 20_K | 23_G | 1.315 | 0.96 |
| 279_F | 284_S | 1.314 | 0.96 |
| 24_F | 27_R | 1.313 | 0.96 |
| 288_V | 294_F | 1.308 | 0.96 |
| 260_F | 263_S | 1.308 | 0.96 |
| 295_S | 298_S | 1.296 | 0.96 |
| 178_V | 195_E | 1.283 | 0.96 |
| 148_A | 165_E | 1.283 | 0.96 |
| 130_T | 153_K | 1.281 | 0.96 |
| 228_A | 238_L | 1.279 | 0.96 |
| 221_M | 249_V | 1.273 | 0.95 |
| 22_G | 27_R | 1.269 | 0.95 |
| 336_L | 354_W | 1.269 | 0.95 |
| 248_L | 258_S | 1.268 | 0.95 |
| 342_A | 347_Y | 1.267 | 0.95 |
| 344_E | 348_T | 1.265 | 0.95 |
| 60_P | 63_Q | 1.264 | 0.95 |
| 229_M | 257_V | 1.263 | 0.95 |
| 2_Y | 28_D | 1.256 | 0.95 |
| 26_V | 79_I | 1.256 | 0.95 |
| 259_D | 280_P | 1.254 | 0.95 |
| 139_G | 147_V | 1.252 | 0.95 |
| 244_A | 283_W | 1.251 | 0.95 |
| 72_F | 82_H | 1.243 | 0.95 |
| 247_C | 306_L | 1.242 | 0.95 |
| 178_V | 197_M | 1.238 | 0.95 |
| 241_D | 261_G | 1.237 | 0.94 |
| 166_A | 183_V | 1.236 | 0.94 |
| 163_I | 166_A | 1.226 | 0.94 |
| 226_C | 367_L | 1.222 | 0.94 |
| 305_V | 318_Y | 1.221 | 0.94 |
| 165_E | 241_D | 1.216 | 0.94 |
| 297_K | 300_I | 1.215 | 0.94 |
| 361_R | 364_F | 1.212 | 0.94 |
| 125_L | 137_K | 1.212 | 0.94 |
| 338_R | 350_M | 1.201 | 0.93 |
| 249_V | 255_V | 1.196 | 0.93 |
| 121_D | 142_R | 1.194 | 0.93 |
| 353_C | 362_P | 1.188 | 0.93 |
| 133_F | 136_V | 1.188 | 0.93 |
| 334_L | 337_Y | 1.185 | 0.93 |
| 1_W | 8_R | 1.181 | 0.92 |
| 230_E | 368_L | 1.176 | 0.92 |
| 326_T | 330_I | 1.176 | 0.92 |
| 129_G | 134_G | 1.174 | 0.92 |
| 25_I | 28_D | 1.174 | 0.92 |
| 117_I | 122_L | 1.173 | 0.92 |
| 225_V | 247_C | 1.172 | 0.92 |
| 240_R | 260_F | 1.159 | 0.92 |
| 27_R | 38_S | 1.157 | 0.91 |
| 75_I | 78_L | 1.144 | 0.91 |
| 315_K | 319_E | 1.144 | 0.91 |
| 6_M | 10_Q | 1.132 | 0.90 |
| 358_A | 361_R | 1.125 | 0.90 |
| 228_A | 246_N | 1.125 | 0.90 |
| 74_T | 78_L | 1.118 | 0.90 |
| 218_L | 313_L | 1.117 | 0.89 |
| 176_K | 227_E | 1.114 | 0.89 |
| 245_R | 280_P | 1.107 | 0.89 |
| 243_A | 280_P | 1.106 | 0.89 |
| 276_G | 279_F | 1.101 | 0.89 |
| 301_W | 314_G | 1.099 | 0.88 |
| 1_W | 26_V | 1.097 | 0.88 |
| 231_Y | 239_H | 1.097 | 0.88 |
| 141_W | 147_V | 1.096 | 0.88 |
| 29_S | 36_T | 1.092 | 0.88 |
| 248_L | 259_D | 1.089 | 0.88 |
| 218_L | 310_I | 1.085 | 0.88 |
| 342_A | 350_M | 1.074 | 0.87 |
| 116_E | 185_T | 1.073 | 0.87 |
| 6_M | 28_D | 1.071 | 0.87 |
| 72_F | 78_L | 1.066 | 0.86 |
| 272_T | 276_G | 1.064 | 0.86 |
| 73_S | 77_E | 1.064 | 0.86 |
| 240_R | 294_F | 1.063 | 0.86 |
| 225_V | 242_L | 1.060 | 0.86 |
| 163_I | 168_V | 1.059 | 0.86 |
| 283_W | 317_P | 1.059 | 0.86 |
| 139_G | 146_D | 1.054 | 0.85 |
| 258_S | 263_S | 1.053 | 0.85 |
| 312_S | 339_P | 1.052 | 0.85 |
| 38_S | 53_H | 1.051 | 0.85 |
| 301_W | 364_F | 1.050 | 0.85 |
| 24_F | 29_S | 1.049 | 0.85 |
| 113_G | 116_E | 1.048 | 0.85 |
| 129_G | 133_F | 1.045 | 0.85 |
| 233_E | 296_S | 1.045 | 0.85 |
| 347_Y | 354_W | 1.043 | 0.85 |
| 192_I | 323_N | 1.040 | 0.84 |
| 240_R | 244_A | 1.040 | 0.84 |
| 140_K | 146_D | 1.035 | 0.84 |
| 306_L | 310_I | 1.035 | 0.84 |
| 289_L | 294_F | 1.034 | 0.84 |
| 36_T | 55_V | 1.033 | 0.84 |
| 228_A | 239_H | 1.026 | 0.83 |
| 23_G | 40_F | 1.022 | 0.83 |
| 134_G | 241_D | 1.019 | 0.83 |
| 131_G | 165_E | 1.016 | 0.82 |
| 136_V | 241_D | 1.016 | 0.82 |
| 348_T | 351_Y | 1.015 | 0.82 |
| 283_W | 303_F | 1.014 | 0.82 |
| 202_L | 205_Y | 1.013 | 0.82 |
| 348_T | 352_S | 1.012 | 0.82 |
| 63_Q | 73_S | 1.012 | 0.82 |
| 303_F | 307_M | 1.012 | 0.82 |
| 241_D | 262_L | 1.009 | 0.82 |
| 128_L | 136_V | 1.006 | 0.82 |
| 339_P | 342_A | 1.005 | 0.82 |
| 189_P | 192_I | 1.002 | 0.81 |
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 | 0.934 | 100 | 0.168 | Contact Map |
| 4fl3A | 1 | 0.9261 | 100 | 0.179 | Contact Map |
| 2h8hA | 1 | 0.9868 | 100 | 0.203 | Contact Map |
| 1fmkA | 1 | 0.9499 | 100 | 0.207 | Contact Map |
| 1opkA | 1 | 0.9763 | 100 | 0.21 | Contact Map |
| 1qcfA | 1 | 0.9842 | 100 | 0.212 | Contact Map |
| 2ozoA | 1 | 0.9314 | 100 | 0.216 | Contact Map |
| 1k9aA | 6 | 0.9525 | 100 | 0.222 | Contact Map |
| 3cblA | 1 | 0.8918 | 100 | 0.241 | Contact Map |
| 4rt7A | 1 | 0 | 100 | 0.379 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)