| pt1 |
| ID: | 1673261587 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 424 (409) | ||
| Sequences: | 1070 (809.2) | ||
| Seq/Len: | 2.616 | ||
| Nf(neff/√len): | 40.0 |
HHblits Results: (2016_02)
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_T | 59_Y | 4.032 | 1.00 |
| 111_G | 114_A | 2.753 | 1.00 |
| 234_F | 281_D | 2.735 | 1.00 |
| 303_T | 365_Y | 2.716 | 1.00 |
| 119_D | 122_N | 2.598 | 1.00 |
| 375_Y | 395_H | 2.583 | 1.00 |
| 233_D | 288_L | 2.254 | 1.00 |
| 291_D | 295_M | 2.237 | 1.00 |
| 63_I | 105_L | 2.216 | 1.00 |
| 85_H | 348_L | 2.205 | 1.00 |
| 81_S | 89_P | 2.151 | 1.00 |
| 308_L | 358_A | 2.130 | 1.00 |
| 356_A | 379_L | 1.944 | 0.99 |
| 330_A | 342_Q | 1.927 | 0.99 |
| 151_Q | 214_Q | 1.927 | 0.99 |
| 291_D | 294_T | 1.858 | 0.99 |
| 177_S | 180_L | 1.842 | 0.99 |
| 206_D | 210_A | 1.833 | 0.99 |
| 213_E | 232_K | 1.828 | 0.99 |
| 282_Y | 329_Y | 1.819 | 0.99 |
| 359_L | 363_F | 1.751 | 0.98 |
| 170_S | 174_V | 1.719 | 0.98 |
| 20_L | 60_H | 1.708 | 0.98 |
| 270_A | 397_W | 1.682 | 0.98 |
| 276_L | 301_V | 1.676 | 0.98 |
| 278_L | 327_I | 1.619 | 0.97 |
| 111_G | 115_G | 1.611 | 0.97 |
| 360_V | 376_K | 1.602 | 0.96 |
| 388_I | 393_N | 1.596 | 0.96 |
| 208_T | 265_L | 1.591 | 0.96 |
| 196_K | 200_T | 1.587 | 0.96 |
| 296_K | 299_E | 1.586 | 0.96 |
| 16_L | 20_L | 1.583 | 0.96 |
| 12_P | 15_I | 1.555 | 0.96 |
| 93_S | 104_R | 1.549 | 0.96 |
| 399_G | 411_N | 1.546 | 0.95 |
| 121_L | 328_N | 1.531 | 0.95 |
| 264_R | 268_Y | 1.516 | 0.95 |
| 31_W | 39_N | 1.510 | 0.95 |
| 24_N | 27_Q | 1.497 | 0.94 |
| 356_A | 376_K | 1.484 | 0.94 |
| 39_N | 52_Q | 1.465 | 0.93 |
| 307_T | 361_E | 1.445 | 0.93 |
| 359_L | 398_L | 1.443 | 0.93 |
| 55_Y | 105_L | 1.439 | 0.93 |
| 413_Y | 416_V | 1.410 | 0.92 |
| 49_V | 53_Y | 1.400 | 0.91 |
| 213_E | 229_S | 1.399 | 0.91 |
| 85_H | 322_R | 1.398 | 0.91 |
| 353_G | 357_D | 1.396 | 0.91 |
| 361_E | 365_Y | 1.387 | 0.91 |
| 280_R | 302_E | 1.379 | 0.90 |
| 13_W | 17_S | 1.375 | 0.90 |
| 202_T | 206_D | 1.373 | 0.90 |
| 230_S | 338_L | 1.371 | 0.90 |
| 224_L | 227_A | 1.361 | 0.90 |
| 304_L | 362_F | 1.351 | 0.89 |
| 82_G | 85_H | 1.341 | 0.89 |
| 403_S | 407_G | 1.337 | 0.89 |
| 209_F | 228_L | 1.320 | 0.88 |
| 81_S | 352_D | 1.316 | 0.87 |
| 31_W | 35_A | 1.315 | 0.87 |
| 144_L | 215_M | 1.310 | 0.87 |
| 328_N | 344_Y | 1.305 | 0.87 |
| 402_Y | 406_K | 1.304 | 0.87 |
| 393_N | 420_N | 1.288 | 0.86 |
| 84_S | 178_L | 1.279 | 0.85 |
| 87_G | 348_L | 1.278 | 0.85 |
| 81_S | 108_Q | 1.276 | 0.85 |
| 13_W | 20_L | 1.274 | 0.85 |
| 105_L | 177_S | 1.273 | 0.85 |
| 178_L | 185_V | 1.270 | 0.85 |
| 38_L | 180_L | 1.266 | 0.85 |
| 45_C | 94_V | 1.264 | 0.84 |
| 111_G | 125_G | 1.258 | 0.84 |
| 79_Y | 110_I | 1.254 | 0.84 |
| 230_S | 289_L | 1.253 | 0.84 |
| 332_K | 335_T | 1.253 | 0.84 |
| 114_A | 119_D | 1.251 | 0.84 |
| 387_D | 390_Q | 1.245 | 0.83 |
| 88_H | 415_D | 1.245 | 0.83 |
| 304_L | 358_A | 1.243 | 0.83 |
| 115_G | 119_D | 1.238 | 0.83 |
| 253_I | 289_L | 1.237 | 0.83 |
| 259_D | 262_L | 1.237 | 0.83 |
| 34_T | 90_L | 1.223 | 0.82 |
| 12_P | 39_N | 1.221 | 0.82 |
| 53_Y | 57_A | 1.221 | 0.82 |
| 36_E | 90_L | 1.216 | 0.81 |
| 211_A | 254_G | 1.213 | 0.81 |
| 403_S | 408_P | 1.203 | 0.80 |
| 309_K | 345_F | 1.201 | 0.80 |
| 329_Y | 356_A | 1.198 | 0.80 |
| 47_Y | 342_Q | 1.197 | 0.80 |
| 59_Y | 64_L | 1.194 | 0.80 |
| 303_T | 366_M | 1.193 | 0.79 |
| 347_L | 398_L | 1.193 | 0.79 |
| 327_I | 412_I | 1.189 | 0.79 |
| 228_L | 331_M | 1.189 | 0.79 |
| 302_E | 306_K | 1.186 | 0.79 |
| 31_W | 56_L | 1.182 | 0.79 |
| 189_V | 257_C | 1.176 | 0.78 |
| 192_S | 251_G | 1.175 | 0.78 |
| 383_F | 395_H | 1.172 | 0.78 |
| 361_E | 364_Q | 1.160 | 0.77 |
| 47_Y | 52_Q | 1.160 | 0.77 |
| 109_A | 192_S | 1.158 | 0.77 |
| 234_F | 286_G | 1.158 | 0.77 |
| 55_Y | 180_L | 1.156 | 0.76 |
| 84_S | 305_A | 1.155 | 0.76 |
| 174_V | 270_A | 1.152 | 0.76 |
| 95_K | 297_G | 1.151 | 0.76 |
| 386_V | 420_N | 1.150 | 0.76 |
| 215_M | 379_L | 1.150 | 0.76 |
| 351_N | 354_F | 1.149 | 0.76 |
| 270_A | 322_R | 1.146 | 0.75 |
| 275_D | 362_F | 1.145 | 0.75 |
| 256_D | 264_R | 1.141 | 0.75 |
| 283_W | 341_P | 1.141 | 0.75 |
| 364_Q | 373_N | 1.140 | 0.75 |
| 45_C | 48_S | 1.137 | 0.75 |
| 91_E | 346_P | 1.135 | 0.75 |
| 191_F | 331_M | 1.135 | 0.75 |
| 149_N | 235_L | 1.133 | 0.74 |
| 178_L | 346_P | 1.133 | 0.74 |
| 31_W | 60_H | 1.130 | 0.74 |
| 83_L | 170_S | 1.129 | 0.74 |
| 20_L | 31_W | 1.128 | 0.74 |
| 224_L | 260_P | 1.125 | 0.74 |
| 39_N | 362_F | 1.124 | 0.73 |
| 147_H | 211_A | 1.122 | 0.73 |
| 48_S | 296_K | 1.121 | 0.73 |
| 355_I | 395_H | 1.120 | 0.73 |
| 254_G | 328_N | 1.117 | 0.73 |
| 208_T | 388_I | 1.117 | 0.73 |
| 92_I | 398_L | 1.116 | 0.73 |
| 83_L | 326_G | 1.116 | 0.73 |
| 363_F | 368_W | 1.115 | 0.73 |
| 45_C | 234_F | 1.112 | 0.72 |
| 38_L | 54_K | 1.110 | 0.72 |
| 23_P | 27_Q | 1.109 | 0.72 |
| 115_G | 120_P | 1.107 | 0.72 |
| 188_K | 268_Y | 1.107 | 0.72 |
| 294_T | 363_F | 1.105 | 0.72 |
| 97_D | 407_G | 1.101 | 0.71 |
| 281_D | 286_G | 1.100 | 0.71 |
| 53_Y | 60_H | 1.100 | 0.71 |
| 123_S | 129_L | 1.099 | 0.71 |
| 237_P | 288_L | 1.099 | 0.71 |
| 40_R | 381_A | 1.098 | 0.71 |
| 52_Q | 56_L | 1.094 | 0.71 |
| 105_L | 180_L | 1.093 | 0.70 |
| 177_S | 265_L | 1.092 | 0.70 |
| 13_W | 16_L | 1.092 | 0.70 |
| 290_T | 295_M | 1.089 | 0.70 |
| 33_N | 37_T | 1.088 | 0.70 |
| 110_I | 122_N | 1.077 | 0.69 |
| 402_Y | 407_G | 1.076 | 0.69 |
| 205_F | 253_I | 1.072 | 0.68 |
| 324_P | 397_W | 1.072 | 0.68 |
| 357_D | 376_K | 1.071 | 0.68 |
| 105_L | 382_K | 1.071 | 0.68 |
| 289_L | 341_P | 1.069 | 0.68 |
| 399_G | 413_Y | 1.069 | 0.68 |
| 251_G | 328_N | 1.069 | 0.68 |
| 234_F | 282_Y | 1.068 | 0.68 |
| 63_I | 207_L | 1.067 | 0.68 |
| 141_D | 260_P | 1.066 | 0.68 |
| 55_Y | 179_D | 1.064 | 0.68 |
| 97_D | 366_M | 1.062 | 0.67 |
| 254_G | 364_Q | 1.060 | 0.67 |
| 30_W | 35_A | 1.059 | 0.67 |
| 86_G | 422_A | 1.056 | 0.67 |
| 13_W | 35_A | 1.051 | 0.66 |
| 47_Y | 276_L | 1.051 | 0.66 |
| 260_P | 263_S | 1.050 | 0.66 |
| 179_D | 186_I | 1.049 | 0.66 |
| 48_S | 51_L | 1.048 | 0.66 |
| 63_I | 286_G | 1.046 | 0.66 |
| 116_T | 119_D | 1.043 | 0.65 |
| 188_K | 344_Y | 1.043 | 0.65 |
| 82_G | 322_R | 1.036 | 0.64 |
| 196_K | 331_M | 1.036 | 0.64 |
| 95_K | 409_S | 1.035 | 0.64 |
| 130_L | 142_L | 1.033 | 0.64 |
| 92_I | 179_D | 1.029 | 0.64 |
| 202_T | 210_A | 1.029 | 0.64 |
| 256_D | 268_Y | 1.028 | 0.64 |
| 26_D | 30_W | 1.026 | 0.63 |
| 68_G | 71_R | 1.025 | 0.63 |
| 20_L | 57_A | 1.023 | 0.63 |
| 114_A | 125_G | 1.020 | 0.63 |
| 61_K | 254_G | 1.020 | 0.63 |
| 82_G | 87_G | 1.020 | 0.63 |
| 89_P | 416_V | 1.019 | 0.63 |
| 370_D | 373_N | 1.018 | 0.62 |
| 174_V | 192_S | 1.017 | 0.62 |
| 111_G | 119_D | 1.017 | 0.62 |
| 151_Q | 211_A | 1.016 | 0.62 |
| 83_L | 322_R | 1.015 | 0.62 |
| 16_L | 341_P | 1.014 | 0.62 |
| 41_V | 187_P | 1.010 | 0.62 |
| 276_L | 279_I | 1.009 | 0.61 |
| 391_T | 420_N | 1.009 | 0.61 |
| 63_I | 354_F | 1.007 | 0.61 |
| 29_L | 70_F | 1.002 | 0.61 |
| 67_L | 178_L | 1.001 | 0.61 |
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 | |
| 4ld7A | 16 | 0.9198 | 100 | -0.019 | Contact Map |
| 3i4zA | 2 | 0.9575 | 100 | -0.005 | Contact Map |
| 3o2kA | 1 | 0.9434 | 100 | 0.006 | Contact Map |
| 4e0tA | 4 | 0.9316 | 100 | 0.009 | Contact Map |
| 3le1A | 2 | 0.1863 | 6.4 | 0.976 | Contact Map |
| 3ccdA | 2 | 0.1816 | 4.9 | 0.977 | Contact Map |
| 1sphA | 2 | 0.184 | 4.5 | 0.978 | Contact Map |
| 1q02A | 1 | 0.1226 | 4.4 | 0.978 | Contact Map |
| 1pchA | 1 | 0.1863 | 4 | 0.978 | Contact Map |
| 1y51A | 3 | 0.184 | 3.7 | 0.979 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)