| 1BSLB |
| ID: | 1411600970 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 324 (322) | ||
| Sequences: | 6469 (4061.1) | ||
| Seq/Len: | 20.090 | ||
| Nf(neff/√len): | 226.3 |
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: 20.090).
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 |
| 236_G | 278_E | 6.572 | 1.00 |
| 29_H | 65_M | 3.498 | 1.00 |
| 129_S | 185_K | 3.488 | 1.00 |
| 236_G | 275_T | 3.388 | 1.00 |
| 59_A | 71_V | 3.204 | 1.00 |
| 147_N | 152_S | 2.938 | 1.00 |
| 126_Q | 149_D | 2.917 | 1.00 |
| 32_D | 68_N | 2.764 | 1.00 |
| 282_A | 285_V | 2.718 | 1.00 |
| 30_Y | 33_Q | 2.564 | 1.00 |
| 207_L | 211_V | 2.520 | 1.00 |
| 235_D | 238_A | 2.517 | 1.00 |
| 70_K | 102_A | 2.455 | 1.00 |
| 275_T | 278_E | 2.424 | 1.00 |
| 180_V | 207_L | 2.411 | 1.00 |
| 63_L | 71_V | 2.320 | 1.00 |
| 40_A | 72_A | 2.305 | 1.00 |
| 181_E | 211_V | 2.275 | 1.00 |
| 90_A | 101_F | 2.274 | 1.00 |
| 237_E | 241_A | 2.246 | 1.00 |
| 63_L | 97_S | 2.232 | 1.00 |
| 29_H | 33_Q | 2.210 | 1.00 |
| 184_A | 211_V | 2.204 | 1.00 |
| 284_R | 288_E | 2.204 | 1.00 |
| 206_G | 210_E | 2.204 | 1.00 |
| 137_D | 144_C | 2.202 | 1.00 |
| 233_N | 238_A | 2.174 | 1.00 |
| 205_A | 224_H | 2.118 | 1.00 |
| 205_A | 209_H | 2.106 | 1.00 |
| 315_V | 319_I | 2.089 | 1.00 |
| 133_K | 186_L | 2.076 | 1.00 |
| 313_D | 317_A | 2.068 | 1.00 |
| 202_K | 206_G | 2.037 | 1.00 |
| 32_D | 66_T | 2.029 | 1.00 |
| 32_D | 67_K | 1.982 | 1.00 |
| 133_K | 146_P | 1.977 | 1.00 |
| 236_G | 240_R | 1.977 | 1.00 |
| 28_A | 62_L | 1.961 | 1.00 |
| 34_L | 316_N | 1.960 | 1.00 |
| 30_Y | 313_D | 1.958 | 1.00 |
| 94_D | 99_G | 1.943 | 1.00 |
| 26_D | 29_H | 1.919 | 1.00 |
| 62_L | 71_V | 1.893 | 1.00 |
| 28_A | 39_L | 1.875 | 1.00 |
| 218_D | 221_Q | 1.873 | 1.00 |
| 277_E | 281_Q | 1.860 | 1.00 |
| 39_L | 69_A | 1.857 | 1.00 |
| 90_A | 103_F | 1.844 | 1.00 |
| 25_L | 29_H | 1.803 | 1.00 |
| 123_S | 149_D | 1.802 | 1.00 |
| 310_A | 313_D | 1.775 | 1.00 |
| 33_Q | 67_K | 1.746 | 1.00 |
| 30_Y | 34_L | 1.736 | 1.00 |
| 285_V | 289_C | 1.731 | 1.00 |
| 126_Q | 150_F | 1.716 | 1.00 |
| 94_D | 164_T | 1.700 | 1.00 |
| 22_E | 98_E | 1.671 | 1.00 |
| 54_A | 89_E | 1.639 | 1.00 |
| 212_A | 222_V | 1.613 | 1.00 |
| 25_L | 65_M | 1.589 | 1.00 |
| 226_L | 292_A | 1.572 | 1.00 |
| 272_A | 279_S | 1.557 | 1.00 |
| 202_K | 289_C | 1.555 | 1.00 |
| 41_V | 62_L | 1.523 | 1.00 |
| 278_E | 281_Q | 1.520 | 1.00 |
| 181_E | 214_A | 1.517 | 1.00 |
| 130_E | 148_N | 1.479 | 1.00 |
| 172_V | 179_V | 1.477 | 1.00 |
| 28_A | 66_T | 1.477 | 1.00 |
| 136_N | 170_Q | 1.468 | 1.00 |
| 132_H | 186_L | 1.455 | 1.00 |
| 22_E | 26_D | 1.430 | 1.00 |
| 25_L | 61_F | 1.415 | 1.00 |
| 210_E | 214_A | 1.410 | 1.00 |
| 234_V | 238_A | 1.405 | 0.99 |
| 130_E | 149_D | 1.377 | 0.99 |
| 61_F | 96_M | 1.374 | 0.99 |
| 41_V | 59_A | 1.361 | 0.99 |
| 310_A | 314_V | 1.358 | 0.99 |
| 184_A | 215_H | 1.358 | 0.99 |
| 181_E | 185_K | 1.351 | 0.99 |
| 16_S | 19_Q | 1.326 | 0.99 |
| 174_A | 190_L | 1.324 | 0.99 |
| 61_F | 64_G | 1.315 | 0.99 |
| 81_H | 89_E | 1.307 | 0.99 |
| 232_Q | 276_Y | 1.305 | 0.99 |
| 129_S | 186_L | 1.295 | 0.99 |
| 53_G | 92_L | 1.294 | 0.99 |
| 105_F | 132_H | 1.290 | 0.99 |
| 140_T | 167_G | 1.289 | 0.99 |
| 123_S | 150_F | 1.282 | 0.99 |
| 11_M | 17_S | 1.265 | 0.99 |
| 228_L | 283_A | 1.264 | 0.99 |
| 72_A | 102_A | 1.256 | 0.99 |
| 211_V | 214_A | 1.253 | 0.99 |
| 181_E | 215_H | 1.251 | 0.99 |
| 54_A | 57_T | 1.251 | 0.99 |
| 21_I | 96_M | 1.247 | 0.99 |
| 314_V | 318_N | 1.246 | 0.98 |
| 145_H | 154_P | 1.240 | 0.98 |
| 134_I | 146_P | 1.234 | 0.98 |
| 235_D | 239_A | 1.233 | 0.98 |
| 136_N | 186_L | 1.233 | 0.98 |
| 136_N | 188_L | 1.225 | 0.98 |
| 274_G | 279_S | 1.217 | 0.98 |
| 207_L | 210_E | 1.214 | 0.98 |
| 277_E | 322_Y | 1.214 | 0.98 |
| 145_H | 155_K | 1.212 | 0.98 |
| 129_S | 133_K | 1.211 | 0.98 |
| 238_A | 242_E | 1.208 | 0.98 |
| 111_S | 115_R | 1.205 | 0.98 |
| 233_N | 239_A | 1.201 | 0.98 |
| 126_Q | 178_E | 1.200 | 0.98 |
| 244_R | 248_E | 1.199 | 0.98 |
| 203_E | 206_G | 1.188 | 0.98 |
| 280_T | 284_R | 1.187 | 0.98 |
| 134_I | 153_F | 1.171 | 0.98 |
| 86_V | 131_C | 1.168 | 0.97 |
| 180_V | 211_V | 1.166 | 0.97 |
| 136_N | 167_G | 1.164 | 0.97 |
| 147_N | 154_P | 1.161 | 0.97 |
| 108_C | 113_D | 1.159 | 0.97 |
| 134_I | 137_D | 1.158 | 0.97 |
| 115_R | 154_P | 1.158 | 0.97 |
| 137_D | 146_P | 1.140 | 0.97 |
| 276_Y | 314_V | 1.138 | 0.97 |
| 137_D | 141_T | 1.135 | 0.97 |
| 181_E | 207_L | 1.126 | 0.97 |
| 182_W | 186_L | 1.119 | 0.96 |
| 243_A | 247_L | 1.115 | 0.96 |
| 120_P | 123_S | 1.102 | 0.96 |
| 178_E | 181_E | 1.095 | 0.96 |
| 278_E | 282_A | 1.092 | 0.96 |
| 281_Q | 284_R | 1.090 | 0.96 |
| 232_Q | 279_S | 1.088 | 0.96 |
| 85_R | 89_E | 1.087 | 0.96 |
| 59_A | 73_S | 1.078 | 0.95 |
| 184_A | 212_A | 1.078 | 0.95 |
| 98_E | 163_F | 1.071 | 0.95 |
| 63_L | 101_F | 1.070 | 0.95 |
| 211_V | 215_H | 1.067 | 0.95 |
| 241_A | 245_V | 1.065 | 0.95 |
| 180_V | 184_A | 1.062 | 0.95 |
| 36_F | 316_N | 1.060 | 0.95 |
| 38_T | 72_A | 1.037 | 0.94 |
| 75_N | 173_N | 1.025 | 0.93 |
| 192_F | 204_Y | 1.025 | 0.93 |
| 223_R | 293_A | 1.023 | 0.93 |
| 57_T | 60_G | 1.023 | 0.93 |
| 208_Y | 212_A | 1.023 | 0.93 |
| 311_V | 314_V | 1.019 | 0.93 |
| 241_A | 244_R | 1.015 | 0.93 |
| 198_N | 202_K | 1.014 | 0.93 |
| 171_F | 225_K | 1.013 | 0.93 |
| 56_L | 89_E | 1.009 | 0.93 |
| 40_A | 74_L | 1.008 | 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 | |
| 1lucB | 1 | 0.9877 | 100 | 0.077 | Contact Map |
| 1lucA | 1 | 0.9784 | 100 | 0.118 | Contact Map |
| 2wgkA | 2 | 0.9969 | 100 | 0.15 | Contact Map |
| 2i7gA | 2 | 0.9938 | 100 | 0.156 | Contact Map |
| 1ezwA | 1 | 0.9414 | 100 | 0.185 | Contact Map |
| 3raoA | 2 | 0.9599 | 100 | 0.193 | Contact Map |
| 1z69A | 4 | 0.9228 | 100 | 0.195 | Contact Map |
| 3b9oA | 2 | 0.9722 | 100 | 0.198 | Contact Map |
| 3sdoA | 2 | 0.9722 | 100 | 0.204 | Contact Map |
| 1tvlA | 1 | 0.9414 | 100 | 0.206 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)