| 4CI0_A |
| ID: | 1488358720 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 386 (373) | ||
| Sequences: | 3902 (1787.4) | ||
| Seq/Len: | 10.461 | ||
| Nf(neff/√len): | 92.5 |
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: 10.461).
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 |
| 179_K | 295_I | 4.553 | 1.00 |
| 172_Y | 299_D | 3.576 | 1.00 |
| 176_K | 295_I | 3.306 | 1.00 |
| 289_T | 292_S | 3.305 | 1.00 |
| 273_E | 278_A | 3.170 | 1.00 |
| 45_K | 48_T | 2.998 | 1.00 |
| 183_N | 288_K | 2.916 | 1.00 |
| 319_L | 336_K | 2.881 | 1.00 |
| 96_L | 294_A | 2.709 | 1.00 |
| 96_L | 297_I | 2.653 | 1.00 |
| 271_F | 278_A | 2.595 | 1.00 |
| 100_A | 137_A | 2.540 | 1.00 |
| 81_S | 320_G | 2.481 | 1.00 |
| 47_V | 55_A | 2.437 | 1.00 |
| 143_M | 170_R | 2.376 | 1.00 |
| 136_N | 177_Q | 2.369 | 1.00 |
| 88_K | 238_D | 2.319 | 1.00 |
| 271_F | 285_L | 2.246 | 1.00 |
| 73_A | 324_I | 2.243 | 1.00 |
| 75_V | 154_V | 2.242 | 1.00 |
| 22_E | 32_G | 2.233 | 1.00 |
| 285_L | 289_T | 2.198 | 1.00 |
| 361_A | 377_Y | 2.198 | 1.00 |
| 62_I | 347_A | 2.186 | 1.00 |
| 32_G | 363_E | 2.165 | 1.00 |
| 205_H | 214_Q | 2.152 | 1.00 |
| 87_P | 90_G | 2.125 | 1.00 |
| 55_A | 342_I | 2.117 | 1.00 |
| 95_E | 235_W | 2.071 | 1.00 |
| 235_W | 250_P | 2.045 | 1.00 |
| 226_R | 253_D | 2.036 | 1.00 |
| 258_E | 289_T | 2.033 | 1.00 |
| 172_Y | 295_I | 2.033 | 1.00 |
| 93_L | 159_M | 2.032 | 1.00 |
| 79_D | 94_R | 2.006 | 1.00 |
| 319_L | 334_M | 2.005 | 1.00 |
| 214_Q | 357_T | 1.987 | 1.00 |
| 72_L | 98_L | 1.955 | 1.00 |
| 336_K | 343_Q | 1.924 | 1.00 |
| 63_C | 380_C | 1.922 | 1.00 |
| 47_V | 345_Y | 1.915 | 1.00 |
| 335_A | 345_Y | 1.899 | 1.00 |
| 95_E | 297_I | 1.861 | 1.00 |
| 21_M | 370_G | 1.846 | 1.00 |
| 186_V | 288_K | 1.841 | 1.00 |
| 238_D | 300_E | 1.801 | 1.00 |
| 264_R | 286_E | 1.767 | 1.00 |
| 77_A | 335_A | 1.747 | 1.00 |
| 80_D | 320_G | 1.744 | 1.00 |
| 338_E | 343_Q | 1.744 | 1.00 |
| 88_K | 92_L | 1.717 | 1.00 |
| 21_M | 33_R | 1.694 | 1.00 |
| 103_V | 287_M | 1.681 | 1.00 |
| 250_P | 297_I | 1.672 | 1.00 |
| 168_R | 298_L | 1.670 | 1.00 |
| 140_V | 171_L | 1.655 | 1.00 |
| 69_P | 327_P | 1.639 | 1.00 |
| 179_K | 292_S | 1.614 | 1.00 |
| 89_A | 162_N | 1.597 | 1.00 |
| 95_E | 250_P | 1.591 | 1.00 |
| 365_F | 373_V | 1.563 | 1.00 |
| 91_R | 234_S | 1.542 | 1.00 |
| 333_H | 347_A | 1.518 | 1.00 |
| 73_A | 333_H | 1.495 | 1.00 |
| 320_G | 335_A | 1.487 | 1.00 |
| 321_I | 332_V | 1.473 | 1.00 |
| 106_H | 286_E | 1.473 | 1.00 |
| 85_E | 91_R | 1.470 | 1.00 |
| 81_S | 337_V | 1.455 | 1.00 |
| 92_L | 297_I | 1.444 | 1.00 |
| 70_H | 333_H | 1.439 | 1.00 |
| 203_G | 267_E | 1.421 | 1.00 |
| 168_R | 301_L | 1.415 | 1.00 |
| 172_Y | 298_L | 1.410 | 1.00 |
| 179_K | 291_L | 1.403 | 0.99 |
| 225_D | 229_E | 1.399 | 0.99 |
| 66_C | 69_P | 1.398 | 0.99 |
| 380_C | 383_C | 1.387 | 0.99 |
| 225_D | 230_I | 1.379 | 0.99 |
| 207_Q | 224_L | 1.379 | 0.99 |
| 92_L | 250_P | 1.376 | 0.99 |
| 59_V | 71_T | 1.373 | 0.99 |
| 194_E | 280_H | 1.373 | 0.99 |
| 86_V | 91_R | 1.369 | 0.99 |
| 186_V | 284_A | 1.364 | 0.99 |
| 92_L | 302_D | 1.364 | 0.99 |
| 24_D | 31_K | 1.362 | 0.99 |
| 136_N | 139_Y | 1.358 | 0.99 |
| 10_T | 13_Q | 1.352 | 0.99 |
| 27_G | 31_K | 1.341 | 0.99 |
| 234_S | 250_P | 1.327 | 0.99 |
| 47_V | 59_V | 1.327 | 0.99 |
| 92_L | 235_W | 1.324 | 0.99 |
| 66_C | 380_C | 1.314 | 0.99 |
| 175_L | 295_I | 1.312 | 0.99 |
| 30_T | 370_G | 1.309 | 0.99 |
| 190_I | 284_A | 1.303 | 0.99 |
| 69_P | 98_L | 1.303 | 0.99 |
| 349_V | 352_T | 1.301 | 0.99 |
| 360_P | 363_E | 1.295 | 0.99 |
| 238_D | 250_P | 1.283 | 0.99 |
| 237_D | 250_P | 1.279 | 0.99 |
| 349_V | 383_C | 1.266 | 0.99 |
| 48_T | 344_F | 1.252 | 0.99 |
| 147_E | 150_H | 1.245 | 0.98 |
| 56_P | 75_V | 1.241 | 0.98 |
| 63_C | 328_R | 1.235 | 0.98 |
| 336_K | 344_F | 1.234 | 0.98 |
| 164_T | 167_A | 1.226 | 0.98 |
| 375_R | 379_P | 1.224 | 0.98 |
| 274_R | 278_A | 1.223 | 0.98 |
| 208_P | 360_P | 1.222 | 0.98 |
| 252_Y | 296_E | 1.218 | 0.98 |
| 333_H | 345_Y | 1.213 | 0.98 |
| 77_A | 320_G | 1.208 | 0.98 |
| 279_Q | 376_A | 1.207 | 0.98 |
| 258_E | 292_S | 1.207 | 0.98 |
| 69_P | 101_H | 1.205 | 0.98 |
| 20_V | 34_Y | 1.204 | 0.98 |
| 328_R | 378_D | 1.196 | 0.98 |
| 293_R | 296_E | 1.196 | 0.98 |
| 101_H | 105_S | 1.178 | 0.98 |
| 90_G | 159_M | 1.173 | 0.98 |
| 97_T | 153_D | 1.164 | 0.97 |
| 109_H | 378_D | 1.159 | 0.97 |
| 176_K | 179_K | 1.157 | 0.97 |
| 55_A | 59_V | 1.151 | 0.97 |
| 235_W | 238_D | 1.150 | 0.97 |
| 323_A | 330_L | 1.135 | 0.97 |
| 174_R | 178_L | 1.127 | 0.97 |
| 102_H | 290_A | 1.127 | 0.97 |
| 261_P | 285_L | 1.121 | 0.97 |
| 206_N | 222_F | 1.114 | 0.96 |
| 167_A | 171_L | 1.111 | 0.96 |
| 62_I | 333_H | 1.107 | 0.96 |
| 182_V | 287_M | 1.104 | 0.96 |
| 76_E | 322_G | 1.102 | 0.96 |
| 168_R | 172_Y | 1.087 | 0.96 |
| 276_V | 373_V | 1.082 | 0.96 |
| 97_T | 145_A | 1.081 | 0.95 |
| 302_D | 305_A | 1.079 | 0.95 |
| 63_C | 66_C | 1.079 | 0.95 |
| 73_A | 322_G | 1.077 | 0.95 |
| 165_E | 168_R | 1.076 | 0.95 |
| 217_G | 282_A | 1.076 | 0.95 |
| 66_C | 105_S | 1.074 | 0.95 |
| 19_L | 35_F | 1.072 | 0.95 |
| 104_N | 137_A | 1.068 | 0.95 |
| 101_H | 151_P | 1.065 | 0.95 |
| 70_H | 73_A | 1.063 | 0.95 |
| 313_E | 316_T | 1.060 | 0.95 |
| 326_A | 331_D | 1.058 | 0.95 |
| 137_A | 178_L | 1.055 | 0.95 |
| 285_L | 288_K | 1.054 | 0.95 |
| 140_V | 174_R | 1.054 | 0.95 |
| 225_D | 259_V | 1.047 | 0.94 |
| 95_E | 293_R | 1.042 | 0.94 |
| 277_V | 281_V | 1.040 | 0.94 |
| 92_L | 300_E | 1.038 | 0.94 |
| 88_K | 91_R | 1.036 | 0.94 |
| 178_L | 291_L | 1.034 | 0.94 |
| 97_T | 144_V | 1.033 | 0.94 |
| 133_I | 185_H | 1.030 | 0.94 |
| 379_P | 383_C | 1.025 | 0.93 |
| 209_T | 219_R | 1.018 | 0.93 |
| 105_S | 328_R | 1.013 | 0.93 |
| 221_K | 282_A | 1.008 | 0.93 |
| 113_I | 280_H | 1.007 | 0.93 |
| 13_Q | 17_A | 1.004 | 0.93 |
| 104_N | 141_V | 1.001 | 0.92 |
| 41_R | 382_S | 1.000 | 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 | |
| 4omfA | 1 | 0.987 | 100 | 0.096 | Contact Map |
| 4kn9L | 2 | 0.9845 | 100 | 0.101 | Contact Map |
| 4uqlQ | 2 | 0.987 | 100 | 0.112 | Contact Map |
| 4u9hL | 1 | 0.9922 | 100 | 0.115 | Contact Map |
| 1e3dB | 2 | 0.9922 | 100 | 0.118 | Contact Map |
| 3ze9B | 1 | 0.9819 | 100 | 0.123 | Contact Map |
| 1yq9H | 2 | 0.987 | 100 | 0.123 | Contact Map |
| 3myrB | 4 | 0.9896 | 100 | 0.129 | Contact Map |
| 4ue3L | 2 | 0.9896 | 100 | 0.132 | Contact Map |
| 4c3oA | 3 | 0.9896 | 100 | 0.143 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)