| 4G1U HmuU |
| ID: | 1378028768 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 334 (318) | ||
| Sequences: | 6302 (4946.9) | ||
| Seq/Len: | 19.818 | ||
| Nf(neff/√len): | 277.4 |
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: 19.818).
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 |
| 216_N | 275_D | 5.371 | 1.00 |
| 67_C | 284_A | 4.360 | 1.00 |
| 75_I | 239_L | 3.457 | 1.00 |
| 63_V | 288_A | 3.239 | 1.00 |
| 231_N | 234_Q | 3.228 | 1.00 |
| 268_I | 286_G | 3.079 | 1.00 |
| 68_A | 246_L | 3.079 | 1.00 |
| 62_A | 186_L | 3.047 | 1.00 |
| 103_I | 122_G | 2.848 | 1.00 |
| 61_L | 189_A | 2.701 | 1.00 |
| 222_D | 236_K | 2.637 | 1.00 |
| 71_V | 284_A | 2.599 | 1.00 |
| 68_A | 250_A | 2.546 | 1.00 |
| 65_V | 254_S | 2.455 | 1.00 |
| 98_L | 159_C | 2.426 | 1.00 |
| 27_N | 35_F | 2.393 | 1.00 |
| 74_T | 283_A | 2.381 | 1.00 |
| 37_T | 40_N | 2.347 | 1.00 |
| 63_V | 292_L | 2.335 | 1.00 |
| 272_I | 282_G | 2.280 | 1.00 |
| 216_N | 276_H | 2.272 | 1.00 |
| 75_I | 208_G | 2.265 | 1.00 |
| 58_R | 295_D | 2.185 | 1.00 |
| 65_V | 250_A | 2.153 | 1.00 |
| 25_S | 59_V | 2.109 | 1.00 |
| 98_L | 162_A | 2.086 | 1.00 |
| 68_A | 201_I | 2.078 | 1.00 |
| 78_G | 276_H | 2.040 | 1.00 |
| 76_M | 243_S | 1.931 | 1.00 |
| 21_L | 293_T | 1.927 | 1.00 |
| 127_S | 248_G | 1.917 | 1.00 |
| 260_I | 291_L | 1.879 | 1.00 |
| 199_S | 203_P | 1.877 | 1.00 |
| 60_L | 194_L | 1.876 | 1.00 |
| 34_S | 37_T | 1.827 | 1.00 |
| 234_Q | 238_R | 1.800 | 1.00 |
| 189_A | 193_T | 1.734 | 1.00 |
| 214_Q | 235_A | 1.723 | 1.00 |
| 217_L | 230_V | 1.722 | 1.00 |
| 186_L | 291_L | 1.691 | 1.00 |
| 203_P | 206_I | 1.690 | 1.00 |
| 268_I | 282_G | 1.674 | 1.00 |
| 297_L | 301_L | 1.673 | 1.00 |
| 264_V | 290_L | 1.667 | 1.00 |
| 79_L | 239_L | 1.656 | 1.00 |
| 298_A | 309_V | 1.656 | 1.00 |
| 299_R | 306_E | 1.614 | 1.00 |
| 276_H | 279_L | 1.593 | 1.00 |
| 61_L | 253_V | 1.585 | 1.00 |
| 36_R | 40_N | 1.581 | 1.00 |
| 22_A | 63_V | 1.555 | 1.00 |
| 268_I | 279_L | 1.554 | 1.00 |
| 190_Q | 193_T | 1.546 | 1.00 |
| 22_A | 59_V | 1.536 | 1.00 |
| 70_A | 264_V | 1.536 | 1.00 |
| 97_A | 163_V | 1.529 | 1.00 |
| 101_G | 163_V | 1.498 | 1.00 |
| 211_Q | 238_R | 1.496 | 1.00 |
| 131_S | 244_A | 1.484 | 1.00 |
| 297_L | 312_L | 1.478 | 1.00 |
| 200_L | 249_A | 1.470 | 1.00 |
| 74_T | 279_L | 1.468 | 1.00 |
| 17_L | 289_C | 1.453 | 1.00 |
| 211_Q | 214_Q | 1.451 | 1.00 |
| 72_S | 246_L | 1.420 | 1.00 |
| 26_A | 59_V | 1.407 | 0.99 |
| 62_A | 291_L | 1.388 | 0.99 |
| 204_T | 208_G | 1.386 | 0.99 |
| 100_V | 123_A | 1.378 | 0.99 |
| 71_V | 205_C | 1.349 | 0.99 |
| 295_D | 299_R | 1.346 | 0.99 |
| 233_R | 236_K | 1.333 | 0.99 |
| 130_I | 159_C | 1.327 | 0.99 |
| 74_T | 276_H | 1.323 | 0.99 |
| 195_L | 199_S | 1.317 | 0.99 |
| 278_W | 281_P | 1.317 | 0.99 |
| 276_H | 281_P | 1.315 | 0.99 |
| 93_S | 247_I | 1.313 | 0.99 |
| 24_G | 27_N | 1.313 | 0.99 |
| 127_S | 244_A | 1.303 | 0.99 |
| 67_C | 288_A | 1.299 | 0.99 |
| 129_A | 133_I | 1.280 | 0.99 |
| 226_H | 233_R | 1.277 | 0.99 |
| 195_L | 198_S | 1.275 | 0.99 |
| 134_I | 155_I | 1.273 | 0.99 |
| 257_I | 291_L | 1.266 | 0.99 |
| 264_V | 268_I | 1.250 | 0.99 |
| 18_L | 289_C | 1.248 | 0.99 |
| 25_S | 296_T | 1.239 | 0.98 |
| 59_V | 296_T | 1.220 | 0.98 |
| 64_V | 194_L | 1.219 | 0.98 |
| 158_L | 318_G | 1.212 | 0.98 |
| 234_Q | 237_L | 1.206 | 0.98 |
| 62_A | 292_L | 1.203 | 0.98 |
| 93_S | 256_V | 1.198 | 0.98 |
| 52_L | 56_L | 1.197 | 0.98 |
| 314_S | 319_P | 1.195 | 0.98 |
| 132_T | 136_T | 1.186 | 0.98 |
| 279_L | 283_A | 1.180 | 0.98 |
| 41_T | 52_L | 1.179 | 0.98 |
| 64_V | 198_S | 1.171 | 0.98 |
| 221_G | 225_A | 1.159 | 0.97 |
| 97_A | 182_S | 1.159 | 0.97 |
| 191_W | 194_L | 1.153 | 0.97 |
| 298_A | 308_P | 1.151 | 0.97 |
| 281_P | 284_A | 1.148 | 0.97 |
| 297_L | 300_T | 1.148 | 0.97 |
| 278_W | 282_G | 1.146 | 0.97 |
| 124_F | 245_I | 1.146 | 0.97 |
| 74_T | 280_L | 1.138 | 0.97 |
| 64_V | 197_A | 1.136 | 0.97 |
| 224_E | 227_Y | 1.125 | 0.97 |
| 289_C | 293_T | 1.120 | 0.96 |
| 291_L | 313_T | 1.115 | 0.96 |
| 268_I | 271_R | 1.114 | 0.96 |
| 207_L | 242_L | 1.112 | 0.96 |
| 204_T | 246_L | 1.105 | 0.96 |
| 58_R | 299_R | 1.103 | 0.96 |
| 102_L | 106_M | 1.098 | 0.96 |
| 122_G | 126_G | 1.094 | 0.96 |
| 315_L | 319_P | 1.094 | 0.96 |
| 124_F | 128_L | 1.092 | 0.96 |
| 216_N | 281_P | 1.090 | 0.96 |
| 33_L | 51_W | 1.088 | 0.96 |
| 235_A | 238_R | 1.085 | 0.96 |
| 99_C | 126_G | 1.083 | 0.96 |
| 207_L | 211_Q | 1.082 | 0.96 |
| 24_G | 28_M | 1.078 | 0.95 |
| 38_L | 51_W | 1.073 | 0.95 |
| 27_N | 38_L | 1.072 | 0.95 |
| 209_L | 280_L | 1.071 | 0.95 |
| 211_Q | 239_L | 1.071 | 0.95 |
| 95_G | 126_G | 1.063 | 0.95 |
| 211_Q | 235_A | 1.060 | 0.95 |
| 197_A | 253_V | 1.056 | 0.95 |
| 38_L | 41_T | 1.053 | 0.95 |
| 130_I | 134_I | 1.049 | 0.94 |
| 254_S | 257_I | 1.049 | 0.94 |
| 31_L | 50_I | 1.046 | 0.94 |
| 320_Y | 323_W | 1.042 | 0.94 |
| 178_F | 182_S | 1.034 | 0.94 |
| 67_C | 70_A | 1.034 | 0.94 |
| 60_L | 191_W | 1.033 | 0.94 |
| 260_I | 313_T | 1.030 | 0.94 |
| 198_S | 202_L | 1.029 | 0.94 |
| 71_V | 280_L | 1.021 | 0.93 |
| 165_V | 169_I | 1.018 | 0.93 |
| 94_S | 159_C | 1.016 | 0.93 |
| 68_A | 72_S | 1.014 | 0.93 |
| 95_G | 130_I | 1.013 | 0.93 |
| 230_V | 235_A | 1.012 | 0.93 |
| 217_L | 228_L | 1.002 | 0.92 |
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 | |
| 4g1uA | 2 | 0.8892 | 100 | 0.141 | Contact Map |
| 2nq2A | 2 | 0.9132 | 100 | 0.191 | Contact Map |
| 2qi9A | 2 | 0.9521 | 100 | 0.201 | Contact Map |
| 2mc7A | 1 | 0.0898 | 6.6 | 0.971 | Contact Map |
| 2m20A | 2 | 0.0928 | 5.5 | 0.972 | Contact Map |
| 1fftB | 2 | 0.1048 | 4.2 | 0.974 | Contact Map |
| 3kp9A | 1 | 0.3713 | 2.6 | 0.976 | Contact Map |
| 2kluA | 1 | 0.1108 | 2.6 | 0.976 | Contact Map |
| 3d31C | 2 | 0.3653 | 2.4 | 0.977 | Contact Map |
| 2l2tA | 2 | 0.1287 | 2.4 | 0.977 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)