| GLP1 |
| ID: | 1485759478 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 463 (396) | ||
| Sequences: | 437 (253.5) | ||
| Seq/Len: | 1.104 | ||
| Nf(neff/√len): | 12.7 |
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: 1.104).
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 |
| 403_C | 406_N | 3.121 | 1.00 |
| 403_C | 408_E | 3.003 | 1.00 |
| 402_Y | 406_N | 2.466 | 0.99 |
| 402_Y | 408_E | 2.318 | 0.99 |
| 67_D | 71_C | 2.189 | 0.98 |
| 326_R | 329_C | 2.161 | 0.98 |
| 75_G | 81_V | 2.039 | 0.97 |
| 404_F | 408_E | 2.025 | 0.97 |
| 62_C | 71_C | 2.009 | 0.96 |
| 403_C | 407_N | 1.974 | 0.96 |
| 403_C | 409_V | 1.961 | 0.96 |
| 406_N | 409_V | 1.947 | 0.95 |
| 151_G | 159_L | 1.902 | 0.95 |
| 163_S | 181_L | 1.880 | 0.94 |
| 324_F | 349_L | 1.873 | 0.94 |
| 64_R | 74_D | 1.865 | 0.94 |
| 235_Y | 247_E | 1.770 | 0.91 |
| 62_C | 72_W | 1.755 | 0.91 |
| 62_C | 67_D | 1.723 | 0.90 |
| 395_G | 408_E | 1.665 | 0.88 |
| 186_S | 240_N | 1.650 | 0.87 |
| 352_S | 387_E | 1.636 | 0.87 |
| 395_G | 403_C | 1.630 | 0.86 |
| 405_V | 408_E | 1.606 | 0.85 |
| 247_E | 251_L | 1.576 | 0.84 |
| 404_F | 409_V | 1.522 | 0.81 |
| 158_A | 396_L | 1.499 | 0.79 |
| 398_V | 406_N | 1.490 | 0.79 |
| 67_D | 86_P | 1.479 | 0.78 |
| 71_C | 86_P | 1.475 | 0.78 |
| 402_Y | 409_V | 1.471 | 0.77 |
| 235_Y | 274_W | 1.462 | 0.77 |
| 402_Y | 405_V | 1.460 | 0.77 |
| 151_G | 155_S | 1.448 | 0.76 |
| 233_M | 360_L | 1.446 | 0.76 |
| 402_Y | 407_N | 1.429 | 0.74 |
| 176_R | 180_H | 1.424 | 0.74 |
| 235_Y | 243_W | 1.424 | 0.74 |
| 247_E | 274_W | 1.403 | 0.73 |
| 177_N | 284_W | 1.397 | 0.72 |
| 195_F | 352_S | 1.382 | 0.71 |
| 175_T | 178_Y | 1.380 | 0.71 |
| 287_V | 308_I | 1.371 | 0.70 |
| 196_I | 204_M | 1.368 | 0.70 |
| 398_V | 408_E | 1.363 | 0.69 |
| 226_C | 247_E | 1.347 | 0.68 |
| 349_L | 352_S | 1.346 | 0.68 |
| 186_S | 363_H | 1.338 | 0.67 |
| 120_W | 126_C | 1.338 | 0.67 |
| 122_D | 126_C | 1.331 | 0.67 |
| 171_H | 324_F | 1.326 | 0.66 |
| 70_A | 83_V | 1.326 | 0.66 |
| 149_T | 198_D | 1.317 | 0.66 |
| 152_Y | 392_S | 1.316 | 0.65 |
| 288_K | 294_E | 1.312 | 0.65 |
| 247_E | 250_Y | 1.309 | 0.65 |
| 395_G | 406_N | 1.308 | 0.65 |
| 173_H | 177_N | 1.302 | 0.64 |
| 62_C | 86_P | 1.294 | 0.64 |
| 412_E | 417_W | 1.293 | 0.63 |
| 108_G | 126_C | 1.293 | 0.63 |
| 140_Q | 143_F | 1.293 | 0.63 |
| 244_L | 324_F | 1.287 | 0.63 |
| 190_R | 197_K | 1.281 | 0.62 |
| 244_L | 352_S | 1.273 | 0.62 |
| 324_F | 352_S | 1.261 | 0.61 |
| 171_H | 190_R | 1.257 | 0.60 |
| 271_S | 319_V | 1.254 | 0.60 |
| 166_L | 400_I | 1.251 | 0.60 |
| 230_F | 238_A | 1.244 | 0.59 |
| 177_N | 190_R | 1.241 | 0.59 |
| 356_L | 361_G | 1.241 | 0.59 |
| 162_A | 190_R | 1.239 | 0.59 |
| 286_I | 290_L | 1.237 | 0.58 |
| 150_V | 366_I | 1.234 | 0.58 |
| 227_R | 293_D | 1.231 | 0.58 |
| 241_Y | 288_K | 1.226 | 0.57 |
| 361_G | 394_Q | 1.216 | 0.56 |
| 247_E | 273_G | 1.216 | 0.56 |
| 324_F | 412_E | 1.215 | 0.56 |
| 174_C | 187_F | 1.212 | 0.56 |
| 107_E | 282_V | 1.208 | 0.56 |
| 158_A | 360_L | 1.207 | 0.56 |
| 32_L | 35_T | 1.205 | 0.55 |
| 171_H | 177_N | 1.204 | 0.55 |
| 352_S | 384_L | 1.196 | 0.55 |
| 240_N | 274_W | 1.196 | 0.55 |
| 172_L | 235_Y | 1.196 | 0.55 |
| 250_Y | 273_G | 1.196 | 0.55 |
| 67_D | 72_W | 1.188 | 0.54 |
| 243_W | 247_E | 1.187 | 0.54 |
| 245_L | 323_I | 1.185 | 0.54 |
| 62_C | 73_P | 1.183 | 0.53 |
| 110_W | 122_D | 1.179 | 0.53 |
| 246_V | 272_I | 1.177 | 0.53 |
| 252_Y | 326_R | 1.174 | 0.52 |
| 175_T | 179_I | 1.171 | 0.52 |
| 306_W | 310_R | 1.170 | 0.52 |
| 300_N | 310_R | 1.169 | 0.52 |
| 246_V | 284_W | 1.168 | 0.52 |
| 50_L | 64_R | 1.163 | 0.51 |
| 191_A | 197_K | 1.161 | 0.51 |
| 152_Y | 174_C | 1.158 | 0.51 |
| 243_W | 274_W | 1.158 | 0.51 |
| 327_V | 359_L | 1.158 | 0.51 |
| 104_C | 126_C | 1.154 | 0.51 |
| 190_R | 324_F | 1.154 | 0.51 |
| 395_G | 398_V | 1.146 | 0.50 |
| 235_Y | 251_L | 1.144 | 0.50 |
| 254_L | 288_K | 1.143 | 0.50 |
| 166_L | 280_F | 1.143 | 0.50 |
| 148_Y | 179_I | 1.141 | 0.49 |
| 31_S | 35_T | 1.138 | 0.49 |
| 76_E | 322_L | 1.138 | 0.49 |
| 187_F | 353_T | 1.135 | 0.49 |
| 266_F | 269_Y | 1.135 | 0.49 |
| 154_L | 414_R | 1.134 | 0.49 |
| 240_N | 243_W | 1.131 | 0.48 |
| 336_K | 420_W | 1.130 | 0.48 |
| 386_T | 389_S | 1.130 | 0.48 |
| 354_L | 358_P | 1.129 | 0.48 |
| 258_S | 382_I | 1.126 | 0.48 |
| 85_C | 394_Q | 1.121 | 0.47 |
| 66_F | 381_F | 1.120 | 0.47 |
| 175_T | 186_S | 1.119 | 0.47 |
| 396_L | 400_I | 1.116 | 0.47 |
| 366_I | 386_T | 1.116 | 0.47 |
| 184_F | 191_A | 1.115 | 0.47 |
| 190_R | 284_W | 1.115 | 0.47 |
| 354_L | 398_V | 1.111 | 0.46 |
| 101_Y | 125_E | 1.111 | 0.46 |
| 120_W | 124_S | 1.106 | 0.46 |
| 389_S | 397_M | 1.103 | 0.46 |
| 31_S | 34_E | 1.099 | 0.45 |
| 328_I | 332_V | 1.096 | 0.45 |
| 335_L | 399_A | 1.094 | 0.45 |
| 356_L | 394_Q | 1.094 | 0.45 |
| 227_R | 353_T | 1.092 | 0.45 |
| 395_G | 409_V | 1.090 | 0.44 |
| 143_F | 209_A | 1.089 | 0.44 |
| 321_F | 393_F | 1.087 | 0.44 |
| 108_G | 120_W | 1.086 | 0.44 |
| 251_L | 274_W | 1.083 | 0.44 |
| 151_G | 156_F | 1.079 | 0.43 |
| 235_Y | 273_G | 1.079 | 0.43 |
| 242_Y | 272_I | 1.076 | 0.43 |
| 40_R | 366_I | 1.074 | 0.43 |
| 178_Y | 198_D | 1.072 | 0.43 |
| 187_F | 348_R | 1.070 | 0.43 |
| 104_C | 110_W | 1.069 | 0.43 |
| 232_L | 286_I | 1.066 | 0.42 |
| 226_C | 235_Y | 1.064 | 0.42 |
| 197_K | 324_F | 1.064 | 0.42 |
| 212_H | 215_D | 1.062 | 0.42 |
| 349_L | 388_L | 1.060 | 0.42 |
| 317_I | 352_S | 1.059 | 0.42 |
| 174_C | 178_Y | 1.057 | 0.41 |
| 352_S | 412_E | 1.057 | 0.41 |
| 67_D | 108_G | 1.054 | 0.41 |
| 78_G | 92_A | 1.053 | 0.41 |
| 189_L | 236_C | 1.049 | 0.41 |
| 78_G | 195_F | 1.048 | 0.41 |
| 198_D | 324_F | 1.048 | 0.41 |
| 244_L | 349_L | 1.048 | 0.41 |
| 197_K | 284_W | 1.047 | 0.40 |
| 364_E | 392_S | 1.047 | 0.40 |
| 102_R | 179_I | 1.046 | 0.40 |
| 42_Y | 45_Q | 1.044 | 0.40 |
| 235_Y | 254_L | 1.043 | 0.40 |
| 151_G | 184_F | 1.042 | 0.40 |
| 245_L | 249_V | 1.038 | 0.40 |
| 224_L | 228_L | 1.037 | 0.40 |
| 110_W | 123_L | 1.036 | 0.39 |
| 187_F | 198_D | 1.036 | 0.39 |
| 70_A | 89_L | 1.031 | 0.39 |
| 161_I | 411_L | 1.030 | 0.39 |
| 155_S | 159_L | 1.029 | 0.39 |
| 327_V | 335_L | 1.027 | 0.39 |
| 180_H | 183_L | 1.027 | 0.39 |
| 228_L | 411_L | 1.024 | 0.38 |
| 187_F | 240_N | 1.024 | 0.38 |
| 170_R | 393_F | 1.023 | 0.38 |
| 300_N | 309_I | 1.023 | 0.38 |
| 239_A | 269_Y | 1.020 | 0.38 |
| 307_L | 311_L | 1.019 | 0.38 |
| 101_Y | 269_Y | 1.015 | 0.38 |
| 139_E | 382_I | 1.010 | 0.37 |
| 177_N | 197_K | 1.007 | 0.37 |
| 85_C | 110_W | 1.006 | 0.37 |
| 149_T | 178_Y | 1.006 | 0.37 |
| 72_W | 86_P | 1.006 | 0.37 |
| 234_Q | 239_A | 1.004 | 0.37 |
| 350_A | 357_I | 1.003 | 0.37 |
| 148_Y | 152_Y | 1.001 | 0.36 |
| 162_A | 177_N | 1.000 | 0.36 |
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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 4k5yA | 3 | 0.5464 | 100 | 0.629 | Contact Map |
| 4l6rA | 1 | 0.8272 | 100 | 0.682 | Contact Map |
| 3c5tA | 1 | 0.2246 | 100 | 0.833 | Contact Map |
| 4jkvA | 2 | 0.8229 | 100 | 0.836 | Contact Map |
| 4ersA | 1 | 0.2073 | 99.9 | 0.846 | Contact Map |
| 4qinA | 1 | 0.6803 | 99.9 | 0.847 | Contact Map |
| 4rwfA | 1 | 0 | 99.9 | 0.848 | Contact Map |
| 2qkhA | 1 | 0.203 | 99.9 | 0.854 | Contact Map |
| 4hj0A | 2 | 0.1987 | 99.9 | 0.855 | Contact Map |
| 1u34A | 1 | 0.2549 | 99.9 | 0.863 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)