| mreb |
| ID: | 1490821465 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 347 (323) | ||
| Sequences: | 11920 (6343.3) | ||
| Seq/Len: | 36.904 | ||
| Nf(neff/√len): | 353.0 |
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: 36.904).
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 |
| 109_R | 136_R | 4.069 | 1.00 |
| 216_E | 220_H | 3.652 | 1.00 |
| 164_V | 267_I | 3.539 | 1.00 |
| 197_A | 262_E | 3.444 | 1.00 |
| 186_S | 266_G | 3.121 | 1.00 |
| 272_M | 310_E | 3.089 | 1.00 |
| 205_N | 255_E | 2.991 | 1.00 |
| 320_D | 323_T | 2.801 | 1.00 |
| 305_R | 309_E | 2.786 | 1.00 |
| 112_V | 130_A | 2.708 | 1.00 |
| 175_V | 274_A | 2.479 | 1.00 |
| 261_Q | 265_T | 2.352 | 1.00 |
| 113_C | 329_G | 2.314 | 1.00 |
| 297_G | 300_L | 2.246 | 1.00 |
| 166_I | 171_T | 2.239 | 1.00 |
| 308_M | 314_P | 2.232 | 1.00 |
| 198_I | 251_L | 2.168 | 1.00 |
| 22_T | 37_S | 2.152 | 1.00 |
| 20_A | 168_G | 2.149 | 1.00 |
| 19_T | 169_G | 2.124 | 1.00 |
| 255_E | 258_E | 2.122 | 1.00 |
| 252_N | 255_E | 2.119 | 1.00 |
| 194_F | 263_P | 2.116 | 1.00 |
| 162_M | 175_V | 2.107 | 1.00 |
| 306_L | 309_E | 2.091 | 1.00 |
| 124_R | 128_E | 2.086 | 1.00 |
| 95_I | 99_H | 2.069 | 1.00 |
| 217_R | 221_E | 2.058 | 1.00 |
| 299_L | 322_L | 2.026 | 1.00 |
| 269_S | 273_V | 2.020 | 1.00 |
| 268_V | 310_E | 1.963 | 1.00 |
| 264_L | 302_N | 1.959 | 1.00 |
| 13_L | 24_I | 1.903 | 1.00 |
| 109_R | 138_V | 1.874 | 1.00 |
| 197_A | 200_N | 1.874 | 1.00 |
| 256_I | 300_L | 1.847 | 1.00 |
| 260_L | 300_L | 1.841 | 1.00 |
| 166_I | 194_F | 1.837 | 1.00 |
| 260_L | 264_L | 1.810 | 1.00 |
| 202_V | 249_F | 1.796 | 1.00 |
| 160_G | 177_S | 1.794 | 1.00 |
| 323_T | 327_R | 1.789 | 1.00 |
| 253_S | 257_L | 1.786 | 1.00 |
| 304_D | 317_V | 1.770 | 1.00 |
| 271_V | 307_L | 1.756 | 1.00 |
| 268_V | 306_L | 1.749 | 1.00 |
| 25_Y | 330_G | 1.736 | 1.00 |
| 196_E | 200_N | 1.729 | 1.00 |
| 201_Y | 259_A | 1.708 | 1.00 |
| 264_L | 306_L | 1.702 | 1.00 |
| 194_F | 260_L | 1.694 | 1.00 |
| 25_Y | 326_A | 1.678 | 1.00 |
| 201_Y | 205_N | 1.668 | 1.00 |
| 306_L | 310_E | 1.665 | 1.00 |
| 162_M | 173_V | 1.658 | 1.00 |
| 23_L | 326_A | 1.640 | 1.00 |
| 261_Q | 306_L | 1.629 | 1.00 |
| 142_E | 145_M | 1.626 | 1.00 |
| 62_M | 66_T | 1.622 | 1.00 |
| 97_Q | 101_N | 1.611 | 1.00 |
| 165_D | 172_E | 1.610 | 1.00 |
| 173_V | 274_A | 1.594 | 1.00 |
| 202_V | 215_A | 1.584 | 1.00 |
| 141_I | 146_A | 1.569 | 1.00 |
| 114_V | 140_L | 1.551 | 1.00 |
| 175_V | 278_C | 1.542 | 1.00 |
| 268_V | 272_M | 1.529 | 1.00 |
| 128_E | 131_Q | 1.528 | 1.00 |
| 227_P | 250_T | 1.522 | 1.00 |
| 159_T | 290_G | 1.514 | 1.00 |
| 92_Q | 96_K | 1.504 | 1.00 |
| 240_N | 247_R | 1.496 | 1.00 |
| 197_A | 260_L | 1.495 | 1.00 |
| 119_T | 122_E | 1.493 | 1.00 |
| 320_D | 327_R | 1.487 | 1.00 |
| 159_T | 289_R | 1.486 | 1.00 |
| 258_E | 261_Q | 1.486 | 1.00 |
| 273_V | 277_Q | 1.485 | 1.00 |
| 131_Q | 136_R | 1.485 | 1.00 |
| 96_K | 100_S | 1.477 | 1.00 |
| 198_I | 215_A | 1.474 | 1.00 |
| 127_R | 131_Q | 1.467 | 1.00 |
| 17_L | 126_I | 1.459 | 1.00 |
| 93_H | 96_K | 1.451 | 1.00 |
| 194_F | 256_I | 1.432 | 1.00 |
| 205_N | 208_S | 1.421 | 1.00 |
| 116_V | 144_P | 1.420 | 1.00 |
| 14_S | 326_A | 1.411 | 1.00 |
| 93_H | 97_Q | 1.411 | 1.00 |
| 201_Y | 255_E | 1.398 | 0.99 |
| 12_D | 109_R | 1.392 | 0.99 |
| 214_T | 218_I | 1.385 | 0.99 |
| 199_I | 215_A | 1.379 | 0.99 |
| 12_D | 138_V | 1.373 | 0.99 |
| 141_I | 332_A | 1.363 | 0.99 |
| 164_V | 171_T | 1.360 | 0.99 |
| 260_L | 263_P | 1.358 | 0.99 |
| 10_S | 109_R | 1.356 | 0.99 |
| 173_V | 270_A | 1.346 | 0.99 |
| 162_M | 271_V | 1.344 | 0.99 |
| 214_T | 217_R | 1.342 | 0.99 |
| 89_K | 92_Q | 1.342 | 0.99 |
| 197_A | 263_P | 1.339 | 0.99 |
| 204_R | 207_G | 1.337 | 0.99 |
| 269_S | 272_M | 1.337 | 0.99 |
| 143_E | 172_E | 1.335 | 0.99 |
| 171_T | 267_I | 1.322 | 0.99 |
| 191_G | 297_G | 1.316 | 0.99 |
| 257_L | 305_R | 1.302 | 0.99 |
| 194_F | 297_G | 1.301 | 0.99 |
| 304_D | 308_M | 1.297 | 0.99 |
| 62_M | 65_R | 1.293 | 0.99 |
| 293_L | 298_A | 1.293 | 0.99 |
| 291_M | 311_T | 1.285 | 0.99 |
| 41_I | 89_K | 1.273 | 0.99 |
| 14_S | 329_G | 1.263 | 0.99 |
| 57_H | 61_Q | 1.252 | 0.99 |
| 195_D | 219_K | 1.236 | 0.98 |
| 22_T | 98_V | 1.234 | 0.98 |
| 109_R | 137_E | 1.232 | 0.98 |
| 98_V | 101_N | 1.218 | 0.98 |
| 16_D | 19_T | 1.206 | 0.98 |
| 254_N | 257_L | 1.198 | 0.98 |
| 305_R | 308_M | 1.196 | 0.98 |
| 261_Q | 302_N | 1.189 | 0.98 |
| 302_N | 305_R | 1.189 | 0.98 |
| 205_N | 249_F | 1.186 | 0.98 |
| 114_V | 142_E | 1.181 | 0.98 |
| 127_R | 140_L | 1.176 | 0.98 |
| 21_N | 322_L | 1.172 | 0.98 |
| 293_L | 307_L | 1.147 | 0.97 |
| 66_T | 69_N | 1.133 | 0.97 |
| 274_A | 278_C | 1.133 | 0.97 |
| 40_A | 54_A | 1.130 | 0.97 |
| 86_V | 91_L | 1.130 | 0.97 |
| 166_I | 297_G | 1.129 | 0.97 |
| 169_G | 172_E | 1.120 | 0.96 |
| 147_A | 325_V | 1.116 | 0.96 |
| 194_F | 300_L | 1.115 | 0.96 |
| 151_A | 292_V | 1.103 | 0.96 |
| 185_S | 273_V | 1.103 | 0.96 |
| 130_A | 140_L | 1.096 | 0.96 |
| 256_I | 297_G | 1.094 | 0.96 |
| 265_T | 269_S | 1.093 | 0.96 |
| 191_G | 219_K | 1.086 | 0.96 |
| 307_L | 315_V | 1.079 | 0.95 |
| 166_I | 303_L | 1.078 | 0.95 |
| 118_A | 122_E | 1.072 | 0.95 |
| 265_T | 306_L | 1.071 | 0.95 |
| 218_I | 230_E | 1.071 | 0.95 |
| 91_L | 126_I | 1.058 | 0.95 |
| 66_T | 70_I | 1.056 | 0.95 |
| 196_E | 199_I | 1.056 | 0.95 |
| 273_V | 276_E | 1.055 | 0.95 |
| 91_L | 95_I | 1.054 | 0.95 |
| 265_T | 268_V | 1.053 | 0.95 |
| 200_N | 204_R | 1.048 | 0.94 |
| 302_N | 306_L | 1.045 | 0.94 |
| 294_T | 324_C | 1.041 | 0.94 |
| 87_T | 91_L | 1.034 | 0.94 |
| 260_L | 302_N | 1.031 | 0.94 |
| 92_Q | 132_G | 1.031 | 0.94 |
| 290_G | 316_V | 1.021 | 0.93 |
| 37_S | 90_M | 1.011 | 0.93 |
| 206_Y | 210_I | 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 | |
| 1jceA | 1 | 0.9539 | 100 | 0.233 | Contact Map |
| 4czgA | 1 | 0.9222 | 100 | 0.251 | Contact Map |
| 2v7yA | 1 | 0.9337 | 100 | 0.253 | Contact Map |
| 4jneA | 2 | 0.9395 | 100 | 0.26 | Contact Map |
| 4fl9A | 1 | 0.9222 | 100 | 0.265 | Contact Map |
| 4rtfD | 1 | 0.8991 | 100 | 0.285 | Contact Map |
| 3d2fA | 2 | 0.928 | 100 | 0.291 | Contact Map |
| 3i33A | 1 | 0.8991 | 100 | 0.293 | Contact Map |
| 4kboA | 1 | 0.9049 | 100 | 0.305 | Contact Map |
| 4j8fA | 1 | 0.9337 | 100 | 0.321 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)