| orp |
| ID: | 1492272553 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 357 (344) | ||
| Sequences: | 1947 (1036.5) | ||
| Seq/Len: | 5.660 | ||
| Nf(neff/√len): | 55.9 |
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: 5.660).
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 |
| 314_E | 317_R | 4.834 | 1.00 |
| 307_K | 310_D | 4.738 | 1.00 |
| 320_E | 324_F | 3.542 | 1.00 |
| 49_C | 54_E | 2.784 | 1.00 |
| 332_E | 344_P | 2.713 | 1.00 |
| 120_A | 147_D | 2.533 | 1.00 |
| 321_A | 325_R | 2.501 | 1.00 |
| 146_V | 157_W | 2.356 | 1.00 |
| 81_L | 318_L | 2.265 | 1.00 |
| 320_E | 327_R | 2.238 | 1.00 |
| 145_H | 154_R | 2.177 | 1.00 |
| 329_R | 346_Y | 2.065 | 1.00 |
| 229_T | 232_N | 2.048 | 1.00 |
| 102_Q | 108_P | 2.045 | 1.00 |
| 302_L | 310_D | 1.985 | 1.00 |
| 28_S | 300_Q | 1.984 | 1.00 |
| 316_V | 320_E | 1.977 | 1.00 |
| 52_P | 191_I | 1.962 | 1.00 |
| 153_N | 184_G | 1.960 | 1.00 |
| 55_Q | 153_N | 1.951 | 1.00 |
| 184_G | 189_T | 1.914 | 1.00 |
| 195_L | 213_G | 1.890 | 1.00 |
| 163_T | 177_H | 1.857 | 1.00 |
| 179_D | 196_K | 1.855 | 1.00 |
| 347_E | 352_T | 1.846 | 1.00 |
| 333_A | 344_P | 1.836 | 1.00 |
| 102_Q | 110_A | 1.830 | 1.00 |
| 63_T | 197_Y | 1.818 | 1.00 |
| 156_T | 185_E | 1.811 | 1.00 |
| 217_N | 221_Q | 1.809 | 1.00 |
| 40_A | 44_D | 1.787 | 1.00 |
| 28_S | 294_S | 1.770 | 1.00 |
| 56_L | 60_A | 1.761 | 1.00 |
| 60_A | 193_C | 1.760 | 1.00 |
| 102_Q | 106_H | 1.740 | 1.00 |
| 56_L | 215_V | 1.709 | 1.00 |
| 266_P | 269_S | 1.708 | 1.00 |
| 53_C | 191_I | 1.697 | 1.00 |
| 112_I | 123_Q | 1.650 | 1.00 |
| 147_D | 154_R | 1.645 | 1.00 |
| 103_V | 111_A | 1.642 | 1.00 |
| 63_T | 180_M | 1.638 | 0.99 |
| 25_E | 32_R | 1.636 | 0.99 |
| 166_N | 173_W | 1.636 | 0.99 |
| 90_R | 93_D | 1.608 | 0.99 |
| 48_Q | 117_K | 1.604 | 0.99 |
| 328_E | 332_E | 1.600 | 0.99 |
| 41_D | 94_L | 1.590 | 0.99 |
| 325_R | 329_R | 1.587 | 0.99 |
| 49_C | 58_Y | 1.572 | 0.99 |
| 79_N | 105_H | 1.546 | 0.99 |
| 27_L | 35_E | 1.541 | 0.99 |
| 79_N | 106_H | 1.533 | 0.99 |
| 165_H | 173_W | 1.481 | 0.99 |
| 313_A | 317_R | 1.462 | 0.99 |
| 78_F | 87_E | 1.434 | 0.98 |
| 310_D | 313_A | 1.433 | 0.98 |
| 195_L | 211_V | 1.431 | 0.98 |
| 262_R | 314_E | 1.429 | 0.98 |
| 76_K | 79_N | 1.418 | 0.98 |
| 3_W | 7_K | 1.400 | 0.98 |
| 302_L | 307_K | 1.398 | 0.98 |
| 264_L | 277_T | 1.396 | 0.98 |
| 258_T | 261_T | 1.389 | 0.98 |
| 191_I | 223_K | 1.384 | 0.98 |
| 104_S | 109_M | 1.362 | 0.97 |
| 115_E | 120_A | 1.360 | 0.97 |
| 328_E | 331_A | 1.359 | 0.97 |
| 43_L | 59_V | 1.358 | 0.97 |
| 324_F | 328_E | 1.354 | 0.97 |
| 192_K | 216_M | 1.348 | 0.97 |
| 209_R | 231_D | 1.347 | 0.97 |
| 106_H | 110_A | 1.343 | 0.97 |
| 105_H | 322_Q | 1.331 | 0.97 |
| 330_E | 345_P | 1.330 | 0.97 |
| 317_R | 321_A | 1.327 | 0.97 |
| 51_D | 54_E | 1.303 | 0.96 |
| 184_G | 191_I | 1.299 | 0.96 |
| 45_K | 58_Y | 1.298 | 0.96 |
| 293_D | 297_R | 1.298 | 0.96 |
| 57_A | 215_V | 1.298 | 0.96 |
| 79_N | 82_L | 1.290 | 0.96 |
| 14_L | 17_I | 1.286 | 0.96 |
| 51_D | 221_Q | 1.283 | 0.96 |
| 268_D | 271_K | 1.283 | 0.96 |
| 36_D | 159_K | 1.280 | 0.96 |
| 97_R | 115_E | 1.262 | 0.96 |
| 130_K | 133_G | 1.262 | 0.96 |
| 282_L | 304_E | 1.260 | 0.96 |
| 181_D | 192_K | 1.253 | 0.95 |
| 293_D | 299_D | 1.245 | 0.95 |
| 266_P | 270_D | 1.244 | 0.95 |
| 180_M | 197_Y | 1.244 | 0.95 |
| 238_P | 241_S | 1.223 | 0.94 |
| 132_R | 137_Q | 1.210 | 0.94 |
| 301_R | 305_E | 1.207 | 0.94 |
| 287_E | 291_P | 1.205 | 0.94 |
| 315_K | 319_E | 1.201 | 0.94 |
| 7_K | 11_G | 1.199 | 0.94 |
| 175_D | 209_R | 1.198 | 0.94 |
| 214_V | 222_V | 1.198 | 0.94 |
| 105_H | 323_R | 1.197 | 0.94 |
| 315_K | 323_R | 1.190 | 0.93 |
| 148_F | 151_T | 1.188 | 0.93 |
| 122_W | 147_D | 1.188 | 0.93 |
| 42_L | 65_S | 1.183 | 0.93 |
| 152_G | 186_N | 1.181 | 0.93 |
| 319_E | 323_R | 1.179 | 0.93 |
| 67_Y | 159_K | 1.174 | 0.93 |
| 216_M | 222_V | 1.169 | 0.93 |
| 37_Y | 121_C | 1.156 | 0.92 |
| 155_Y | 182_I | 1.154 | 0.92 |
| 17_I | 27_L | 1.152 | 0.92 |
| 302_L | 314_E | 1.152 | 0.92 |
| 241_S | 244_G | 1.150 | 0.92 |
| 285_W | 289_V | 1.142 | 0.91 |
| 224_W | 236_I | 1.141 | 0.91 |
| 24_N | 31_Q | 1.124 | 0.91 |
| 277_T | 281_Q | 1.122 | 0.90 |
| 285_W | 288_G | 1.119 | 0.90 |
| 37_Y | 114_C | 1.116 | 0.90 |
| 56_L | 155_Y | 1.113 | 0.90 |
| 79_N | 84_E | 1.112 | 0.90 |
| 122_W | 145_H | 1.102 | 0.89 |
| 106_H | 322_Q | 1.100 | 0.89 |
| 310_D | 314_E | 1.099 | 0.89 |
| 319_E | 322_Q | 1.099 | 0.89 |
| 79_N | 322_Q | 1.094 | 0.89 |
| 148_F | 153_N | 1.092 | 0.89 |
| 112_I | 121_C | 1.092 | 0.89 |
| 104_S | 108_P | 1.089 | 0.89 |
| 160_V | 180_M | 1.089 | 0.89 |
| 183_V | 192_K | 1.082 | 0.88 |
| 42_L | 58_Y | 1.080 | 0.88 |
| 289_V | 296_R | 1.080 | 0.88 |
| 132_R | 135_Y | 1.079 | 0.88 |
| 185_E | 189_T | 1.072 | 0.88 |
| 247_D | 251_Y | 1.069 | 0.87 |
| 8_N | 22_N | 1.066 | 0.87 |
| 47_S | 118_G | 1.061 | 0.87 |
| 76_K | 86_Y | 1.058 | 0.87 |
| 52_P | 215_V | 1.052 | 0.86 |
| 120_A | 149_P | 1.048 | 0.86 |
| 275_F | 279_A | 1.043 | 0.86 |
| 96_W | 116_G | 1.043 | 0.86 |
| 166_N | 170_G | 1.042 | 0.85 |
| 76_K | 105_H | 1.029 | 0.84 |
| 211_V | 234_I | 1.028 | 0.84 |
| 155_Y | 184_G | 1.022 | 0.84 |
| 15_S | 175_D | 1.022 | 0.84 |
| 67_Y | 70_T | 1.021 | 0.84 |
| 27_L | 38_E | 1.020 | 0.84 |
| 291_P | 294_S | 1.018 | 0.84 |
| 75_G | 172_L | 1.011 | 0.83 |
| 30_L | 133_G | 1.009 | 0.83 |
| 217_N | 220_G | 1.008 | 0.83 |
| 143_V | 156_T | 1.005 | 0.83 |
| 106_H | 323_R | 1.002 | 0.82 |
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 | |
| 4ic4A | 1 | 0.8936 | 100 | 0.147 | Contact Map |
| 4b2zA | 2 | 0.8936 | 100 | 0.185 | Contact Map |
| 1zhxA | 1 | 0.8908 | 100 | 0.185 | Contact Map |
| 2lhuA | 1 | 0.0952 | 9.6 | 0.976 | Contact Map |
| 1mw5A | 2 | 0.1345 | 9.5 | 0.976 | Contact Map |
| 1mkyA | 1 | 0.3754 | 6.8 | 0.978 | Contact Map |
| 2eayA | 2 | 0.3389 | 6.5 | 0.978 | Contact Map |
| 2c5iP | 1 | 0.0616 | 6.1 | 0.978 | Contact Map |
| 1fa2A | 1 | 0.2073 | 6 | 0.978 | Contact Map |
| 3synE | 4 | 0.0448 | 5.6 | 0.979 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)