| T0801 |
| ID: | 1401910739 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 376 (374) | ||
| Sequences: | 1913 (1492.2) | ||
| Seq/Len: | 5.115 | ||
| Nf(neff/√len): | 77.2 |
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: 5.115).
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 |
| 113_E | 144_K | 3.405 | 1.00 |
| 267_A | 368_I | 3.338 | 1.00 |
| 136_D | 162_K | 3.192 | 1.00 |
| 265_Y | 293_F | 3.166 | 1.00 |
| 40_L | 191_A | 3.017 | 1.00 |
| 11_G | 15_D | 2.803 | 1.00 |
| 43_R | 251_D | 2.726 | 1.00 |
| 39_W | 244_W | 2.640 | 1.00 |
| 263_N | 365_R | 2.609 | 1.00 |
| 134_E | 137_T | 2.511 | 1.00 |
| 53_P | 57_A | 2.499 | 1.00 |
| 139_M | 149_V | 2.493 | 1.00 |
| 19_S | 32_F | 2.442 | 1.00 |
| 112_I | 138_I | 2.430 | 1.00 |
| 123_I | 142_A | 2.401 | 1.00 |
| 160_T | 165_A | 2.399 | 1.00 |
| 263_N | 364_Q | 2.269 | 1.00 |
| 313_A | 373_N | 2.269 | 1.00 |
| 192_T | 203_A | 2.262 | 1.00 |
| 43_R | 165_A | 2.225 | 1.00 |
| 345_K | 349_R | 2.201 | 1.00 |
| 171_H | 196_D | 2.198 | 1.00 |
| 256_Q | 259_A | 2.197 | 1.00 |
| 48_K | 197_K | 2.146 | 1.00 |
| 13_E | 245_A | 2.123 | 1.00 |
| 32_F | 244_W | 2.123 | 1.00 |
| 139_M | 143_K | 2.123 | 1.00 |
| 47_A | 195_N | 2.116 | 1.00 |
| 268_L | 371_L | 2.115 | 1.00 |
| 185_A | 243_L | 2.081 | 1.00 |
| 73_E | 120_T | 2.066 | 1.00 |
| 60_E | 233_Y | 2.062 | 1.00 |
| 58_S | 174_C | 2.051 | 1.00 |
| 306_L | 371_L | 2.030 | 1.00 |
| 296_K | 349_R | 1.996 | 1.00 |
| 110_T | 137_T | 1.991 | 1.00 |
| 127_H | 135_M | 1.969 | 1.00 |
| 98_V | 115_A | 1.968 | 1.00 |
| 140_A | 144_K | 1.928 | 1.00 |
| 256_Q | 361_P | 1.927 | 1.00 |
| 111_L | 114_A | 1.923 | 1.00 |
| 117_T | 120_T | 1.849 | 1.00 |
| 35_R | 39_W | 1.839 | 1.00 |
| 142_A | 149_V | 1.838 | 1.00 |
| 360_S | 363_N | 1.832 | 1.00 |
| 236_S | 239_Q | 1.832 | 1.00 |
| 12_T | 248_E | 1.832 | 1.00 |
| 138_I | 149_V | 1.828 | 1.00 |
| 366_T | 370_T | 1.811 | 1.00 |
| 18_Q | 22_G | 1.805 | 1.00 |
| 270_P | 372_L | 1.804 | 1.00 |
| 197_K | 201_E | 1.798 | 1.00 |
| 80_T | 324_L | 1.795 | 1.00 |
| 39_W | 248_E | 1.790 | 1.00 |
| 47_A | 197_K | 1.784 | 1.00 |
| 313_A | 370_T | 1.778 | 1.00 |
| 109_E | 141_L | 1.770 | 1.00 |
| 194_I | 200_I | 1.747 | 1.00 |
| 14_L | 18_Q | 1.711 | 1.00 |
| 306_L | 374_Y | 1.696 | 1.00 |
| 136_D | 161_Y | 1.690 | 1.00 |
| 73_E | 119_K | 1.678 | 0.99 |
| 108_D | 111_L | 1.657 | 0.99 |
| 66_L | 148_F | 1.637 | 0.99 |
| 309_F | 374_Y | 1.627 | 0.99 |
| 107_I | 112_I | 1.626 | 0.99 |
| 127_H | 170_G | 1.626 | 0.99 |
| 72_D | 121_R | 1.618 | 0.99 |
| 306_L | 351_L | 1.603 | 0.99 |
| 143_K | 171_H | 1.592 | 0.99 |
| 116_I | 141_L | 1.580 | 0.99 |
| 364_Q | 368_I | 1.572 | 0.99 |
| 16_Y | 245_A | 1.555 | 0.99 |
| 38_Q | 42_Q | 1.549 | 0.99 |
| 310_L | 317_A | 1.548 | 0.99 |
| 309_F | 312_E | 1.528 | 0.99 |
| 49_V | 191_A | 1.528 | 0.99 |
| 14_L | 22_G | 1.526 | 0.99 |
| 73_E | 117_T | 1.522 | 0.99 |
| 41_E | 49_V | 1.495 | 0.99 |
| 132_A | 166_L | 1.486 | 0.98 |
| 11_G | 22_G | 1.485 | 0.98 |
| 101_R | 104_T | 1.485 | 0.98 |
| 32_F | 35_R | 1.485 | 0.98 |
| 68_I | 122_V | 1.475 | 0.98 |
| 125_P | 149_V | 1.469 | 0.98 |
| 156_G | 166_L | 1.463 | 0.98 |
| 200_I | 204_E | 1.443 | 0.98 |
| 256_Q | 260_L | 1.435 | 0.98 |
| 175_F | 193_L | 1.413 | 0.98 |
| 68_I | 74_V | 1.406 | 0.98 |
| 196_D | 199_L | 1.403 | 0.98 |
| 262_Q | 266_D | 1.395 | 0.97 |
| 100_V | 346_E | 1.389 | 0.97 |
| 142_A | 147_L | 1.389 | 0.97 |
| 10_V | 249_A | 1.388 | 0.97 |
| 267_A | 372_L | 1.387 | 0.97 |
| 249_A | 252_R | 1.384 | 0.97 |
| 326_G | 344_T | 1.382 | 0.97 |
| 111_L | 115_A | 1.377 | 0.97 |
| 16_Y | 248_E | 1.371 | 0.97 |
| 68_I | 93_A | 1.370 | 0.97 |
| 35_R | 244_W | 1.369 | 0.97 |
| 259_A | 361_P | 1.349 | 0.97 |
| 10_V | 13_E | 1.343 | 0.97 |
| 297_L | 306_L | 1.341 | 0.97 |
| 302_D | 305_A | 1.338 | 0.96 |
| 365_R | 369_A | 1.331 | 0.96 |
| 267_A | 365_R | 1.327 | 0.96 |
| 76_M | 88_F | 1.324 | 0.96 |
| 127_H | 151_E | 1.320 | 0.96 |
| 141_L | 145_H | 1.317 | 0.96 |
| 78_S | 343_T | 1.316 | 0.96 |
| 86_N | 330_G | 1.314 | 0.96 |
| 258_L | 287_V | 1.312 | 0.96 |
| 105_M | 346_E | 1.302 | 0.96 |
| 235_M | 240_A | 1.301 | 0.96 |
| 182_N | 291_H | 1.301 | 0.96 |
| 160_T | 287_V | 1.295 | 0.96 |
| 255_Q | 259_A | 1.293 | 0.95 |
| 137_T | 140_A | 1.290 | 0.95 |
| 307_I | 317_A | 1.290 | 0.95 |
| 36_C | 243_L | 1.287 | 0.95 |
| 62_A | 150_V | 1.283 | 0.95 |
| 48_K | 200_I | 1.273 | 0.95 |
| 66_L | 150_V | 1.273 | 0.95 |
| 41_E | 44_F | 1.269 | 0.95 |
| 177_F | 191_A | 1.261 | 0.95 |
| 135_M | 149_V | 1.260 | 0.95 |
| 50_L | 200_I | 1.250 | 0.94 |
| 308_N | 312_E | 1.247 | 0.94 |
| 84_T | 87_A | 1.245 | 0.94 |
| 263_N | 361_P | 1.238 | 0.94 |
| 169_I | 173_G | 1.230 | 0.94 |
| 338_G | 344_T | 1.227 | 0.94 |
| 49_V | 193_L | 1.218 | 0.93 |
| 295_I | 371_L | 1.216 | 0.93 |
| 245_A | 248_E | 1.215 | 0.93 |
| 260_L | 355_L | 1.196 | 0.92 |
| 113_E | 141_L | 1.193 | 0.92 |
| 222_D | 226_W | 1.191 | 0.92 |
| 65_L | 203_A | 1.174 | 0.91 |
| 16_Y | 20_A | 1.164 | 0.91 |
| 123_I | 147_L | 1.163 | 0.91 |
| 73_E | 94_K | 1.159 | 0.91 |
| 102_P | 342_Y | 1.158 | 0.91 |
| 277_I | 295_I | 1.154 | 0.90 |
| 78_S | 325_H | 1.140 | 0.90 |
| 88_F | 95_I | 1.139 | 0.90 |
| 73_E | 116_I | 1.132 | 0.89 |
| 148_F | 171_H | 1.131 | 0.89 |
| 116_I | 123_I | 1.129 | 0.89 |
| 13_E | 246_Q | 1.123 | 0.89 |
| 291_H | 320_H | 1.116 | 0.88 |
| 263_N | 267_A | 1.110 | 0.88 |
| 54_S | 57_A | 1.103 | 0.88 |
| 309_F | 313_A | 1.101 | 0.87 |
| 77_P | 88_F | 1.101 | 0.87 |
| 122_V | 150_V | 1.099 | 0.87 |
| 66_L | 172_I | 1.096 | 0.87 |
| 55_C | 58_S | 1.096 | 0.87 |
| 25_K | 237_D | 1.096 | 0.87 |
| 279_L | 293_F | 1.095 | 0.87 |
| 125_P | 142_A | 1.089 | 0.87 |
| 140_A | 143_K | 1.076 | 0.86 |
| 58_S | 192_T | 1.074 | 0.86 |
| 359_L | 367_V | 1.072 | 0.86 |
| 63_A | 124_V | 1.071 | 0.85 |
| 313_A | 366_T | 1.071 | 0.85 |
| 172_I | 203_A | 1.070 | 0.85 |
| 172_I | 199_L | 1.068 | 0.85 |
| 306_L | 310_L | 1.061 | 0.85 |
| 113_E | 137_T | 1.054 | 0.84 |
| 139_M | 169_I | 1.044 | 0.83 |
| 40_L | 157_V | 1.042 | 0.83 |
| 20_A | 32_F | 1.035 | 0.83 |
| 75_I | 112_I | 1.035 | 0.83 |
| 170_G | 173_G | 1.032 | 0.82 |
| 60_E | 90_L | 1.030 | 0.82 |
| 15_D | 19_S | 1.025 | 0.82 |
| 26_L | 237_D | 1.020 | 0.81 |
| 72_D | 93_A | 1.019 | 0.81 |
| 98_V | 111_L | 1.015 | 0.81 |
| 263_N | 368_I | 1.008 | 0.80 |
| 75_I | 120_T | 1.003 | 0.80 |
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 | |
| 2c81A | 1 | 0.9787 | 100 | 0.519 | Contact Map |
| 3b8xA | 2 | 0.9707 | 100 | 0.527 | Contact Map |
| 3bb8A | 2 | 0.9787 | 100 | 0.529 | Contact Map |
| 1b9hA | 1 | 0.9707 | 100 | 0.538 | Contact Map |
| 3frkA | 2 | 0.9521 | 100 | 0.541 | Contact Map |
| 1o69A | 2 | 0.9309 | 100 | 0.566 | Contact Map |
| 4lc3A | 2 | 0.9707 | 100 | 0.567 | Contact Map |
| 1mdoA | 1 | 0.9601 | 100 | 0.575 | Contact Map |
| 3dr4A | 4 | 0.9681 | 100 | 0.582 | Contact Map |
| 3nytA | 1 | 0.9388 | 100 | 0.582 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)