| z13 |
| ID: | 1489783141 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 361 (279) | ||
| Sequences: | 6432 (3940.2) | ||
| Seq/Len: | 23.054 | ||
| Nf(neff/√len): | 235.9 |
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: 23.054).
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 |
| 151_T | 313_F | 3.335 | 1.00 |
| 119_A | 312_P | 2.753 | 1.00 |
| 98_Q | 345_L | 2.661 | 1.00 |
| 224_L | 287_A | 2.644 | 1.00 |
| 102_F | 352_V | 2.476 | 1.00 |
| 112_F | 319_L | 2.308 | 1.00 |
| 144_W | 309_W | 2.191 | 1.00 |
| 149_I | 323_L | 2.088 | 1.00 |
| 145_V | 319_L | 2.032 | 1.00 |
| 116_L | 145_V | 1.933 | 1.00 |
| 218_D | 247_H | 1.788 | 1.00 |
| 271_K | 275_S | 1.753 | 1.00 |
| 114_H | 353_M | 1.750 | 1.00 |
| 267_W | 271_K | 1.749 | 1.00 |
| 222_H | 248_E | 1.734 | 1.00 |
| 59_I | 63_L | 1.731 | 1.00 |
| 248_E | 252_E | 1.677 | 1.00 |
| 60_C | 64_G | 1.631 | 1.00 |
| 119_A | 141_L | 1.621 | 1.00 |
| 215_N | 218_D | 1.603 | 1.00 |
| 153_L | 157_K | 1.597 | 1.00 |
| 107_L | 318_F | 1.595 | 1.00 |
| 229_S | 240_T | 1.584 | 1.00 |
| 218_D | 223_G | 1.578 | 1.00 |
| 238_L | 242_M | 1.549 | 1.00 |
| 110_N | 114_H | 1.531 | 1.00 |
| 120_W | 142_G | 1.501 | 1.00 |
| 59_I | 62_L | 1.477 | 1.00 |
| 108_L | 346_L | 1.460 | 1.00 |
| 144_W | 148_G | 1.456 | 1.00 |
| 109_G | 113_L | 1.443 | 1.00 |
| 226_V | 244_I | 1.435 | 1.00 |
| 351_V | 355_L | 1.423 | 1.00 |
| 323_L | 327_L | 1.415 | 1.00 |
| 171_P | 174_D | 1.409 | 1.00 |
| 215_N | 252_E | 1.404 | 0.99 |
| 248_E | 251_H | 1.402 | 0.99 |
| 61_S | 65_S | 1.384 | 0.99 |
| 65_S | 69_G | 1.381 | 0.99 |
| 220_F | 283_G | 1.368 | 0.99 |
| 186_H | 189_A | 1.366 | 0.99 |
| 218_D | 222_H | 1.363 | 0.99 |
| 143_L | 147_A | 1.351 | 0.99 |
| 212_L | 259_L | 1.351 | 0.99 |
| 215_N | 222_H | 1.334 | 0.99 |
| 255_D | 276_T | 1.334 | 0.99 |
| 148_G | 313_F | 1.310 | 0.99 |
| 118_E | 121_A | 1.303 | 0.99 |
| 305_E | 309_W | 1.286 | 0.99 |
| 57_T | 60_C | 1.279 | 0.99 |
| 268_S | 271_K | 1.266 | 0.99 |
| 149_I | 347_C | 1.262 | 0.99 |
| 259_L | 264_F | 1.259 | 0.99 |
| 355_L | 359_F | 1.257 | 0.99 |
| 56_D | 59_I | 1.256 | 0.99 |
| 65_S | 68_V | 1.255 | 0.99 |
| 230_F | 237_G | 1.255 | 0.99 |
| 111_V | 319_L | 1.255 | 0.99 |
| 256_F | 273_Q | 1.255 | 0.99 |
| 215_N | 251_H | 1.254 | 0.99 |
| 114_H | 247_H | 1.254 | 0.99 |
| 240_T | 251_H | 1.250 | 0.99 |
| 248_E | 255_D | 1.249 | 0.99 |
| 103_A | 110_N | 1.249 | 0.99 |
| 144_W | 312_P | 1.241 | 0.98 |
| 251_H | 255_D | 1.236 | 0.98 |
| 70_L | 74_F | 1.234 | 0.98 |
| 196_G | 199_A | 1.227 | 0.98 |
| 68_V | 71_S | 1.224 | 0.98 |
| 120_W | 141_L | 1.222 | 0.98 |
| 65_S | 280_G | 1.216 | 0.98 |
| 155_L | 217_I | 1.215 | 0.98 |
| 248_E | 318_F | 1.207 | 0.98 |
| 265_D | 268_S | 1.202 | 0.98 |
| 216_T | 279_G | 1.199 | 0.98 |
| 55_L | 59_I | 1.191 | 0.98 |
| 66_L | 70_L | 1.189 | 0.98 |
| 153_L | 320_Y | 1.187 | 0.98 |
| 143_L | 309_W | 1.184 | 0.98 |
| 110_N | 247_H | 1.162 | 0.97 |
| 276_T | 281_L | 1.159 | 0.97 |
| 152_F | 317_G | 1.158 | 0.97 |
| 67_M | 71_S | 1.156 | 0.97 |
| 194_E | 197_L | 1.150 | 0.97 |
| 189_A | 193_A | 1.147 | 0.97 |
| 74_F | 77_L | 1.146 | 0.97 |
| 225_A | 240_T | 1.137 | 0.97 |
| 62_L | 66_L | 1.136 | 0.97 |
| 111_V | 318_F | 1.135 | 0.97 |
| 241_T | 245_L | 1.134 | 0.97 |
| 72_G | 75_P | 1.133 | 0.97 |
| 215_N | 219_N | 1.132 | 0.97 |
| 215_N | 248_E | 1.129 | 0.97 |
| 156_E | 320_Y | 1.127 | 0.97 |
| 348_A | 352_V | 1.126 | 0.97 |
| 314_T | 317_G | 1.121 | 0.97 |
| 211_N | 214_A | 1.112 | 0.96 |
| 105_G | 112_F | 1.106 | 0.96 |
| 74_F | 78_V | 1.103 | 0.96 |
| 208_G | 262_A | 1.101 | 0.96 |
| 104_L | 326_V | 1.100 | 0.96 |
| 252_E | 255_D | 1.098 | 0.96 |
| 349_G | 353_M | 1.097 | 0.96 |
| 276_T | 279_G | 1.095 | 0.96 |
| 226_V | 241_T | 1.094 | 0.96 |
| 55_L | 60_C | 1.093 | 0.96 |
| 123_T | 308_A | 1.092 | 0.96 |
| 226_V | 280_G | 1.087 | 0.96 |
| 169_Q | 173_K | 1.087 | 0.96 |
| 347_C | 351_V | 1.086 | 0.96 |
| 156_E | 322_A | 1.086 | 0.96 |
| 260_L | 263_G | 1.082 | 0.96 |
| 274_L | 277_A | 1.081 | 0.95 |
| 108_L | 322_A | 1.081 | 0.95 |
| 119_A | 308_A | 1.075 | 0.95 |
| 278_L | 281_L | 1.073 | 0.95 |
| 221_T | 225_A | 1.069 | 0.95 |
| 215_N | 255_D | 1.068 | 0.95 |
| 113_L | 354_V | 1.061 | 0.95 |
| 219_N | 248_E | 1.061 | 0.95 |
| 109_G | 350_I | 1.059 | 0.95 |
| 220_F | 286_F | 1.058 | 0.95 |
| 108_L | 112_F | 1.054 | 0.95 |
| 240_T | 243_A | 1.046 | 0.94 |
| 227_A | 314_T | 1.042 | 0.94 |
| 251_H | 318_F | 1.041 | 0.94 |
| 276_T | 280_G | 1.041 | 0.94 |
| 138_Q | 354_V | 1.039 | 0.94 |
| 277_A | 281_L | 1.037 | 0.94 |
| 260_L | 269_A | 1.037 | 0.94 |
| 219_N | 223_G | 1.034 | 0.94 |
| 154_A | 343_L | 1.030 | 0.94 |
| 222_H | 251_H | 1.028 | 0.94 |
| 327_L | 346_L | 1.027 | 0.94 |
| 323_L | 331_L | 1.023 | 0.93 |
| 66_L | 69_G | 1.021 | 0.93 |
| 140_Q | 143_L | 1.016 | 0.93 |
| 318_F | 322_A | 1.016 | 0.93 |
| 260_L | 266_R | 1.015 | 0.93 |
| 302_A | 306_T | 1.011 | 0.93 |
| 64_G | 68_V | 1.008 | 0.93 |
| 71_S | 80_P | 1.005 | 0.93 |
| 271_K | 274_L | 1.004 | 0.93 |
| 56_D | 60_C | 1.003 | 0.93 |
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 | 0.3186 | 33.2 | 0.952 | Contact Map |
| 4zw9A | 1 | 0 | 26.5 | 0.954 | Contact Map |
| 4tkrA | 2 | 0.3573 | 14.5 | 0.959 | Contact Map |
| 3llqA | 2 | 0.4321 | 11.8 | 0.961 | Contact Map |
| 4j05A | 2 | 0.3961 | 9.8 | 0.962 | Contact Map |
| 2b2hA | 1 | 0.4765 | 6.7 | 0.965 | Contact Map |
| 4gc0A | 1 | 0.3934 | 6.1 | 0.966 | Contact Map |
| 3rlbA | 2 | 0.3407 | 6.1 | 0.966 | Contact Map |
| 2l9uA | 2 | 0.108 | 4.4 | 0.968 | Contact Map |
| 4pypA | 1 | 0.3684 | 4 | 0.969 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)