| T0806 |
| ID: | 1403287152 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 258 (256) | ||
| Sequences: | 1627 (1188) | ||
| Seq/Len: | 6.355 | ||
| Nf(neff/√len): | 74.2 |
Jackhmmer Results: (2014_04_16)
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: 6.355).
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 |
| 30_N | 150_I | 3.945 | 1.00 |
| 52_I | 56_L | 3.495 | 1.00 |
| 92_Q | 95_T | 2.955 | 1.00 |
| 142_D | 145_Q | 2.622 | 1.00 |
| 241_D | 244_S | 2.616 | 1.00 |
| 81_L | 101_F | 2.568 | 1.00 |
| 60_N | 63_R | 2.536 | 1.00 |
| 100_D | 221_E | 2.431 | 1.00 |
| 217_R | 221_E | 2.407 | 1.00 |
| 226_K | 229_Q | 2.379 | 1.00 |
| 149_D | 153_N | 2.356 | 1.00 |
| 104_A | 220_I | 2.352 | 1.00 |
| 47_S | 54_D | 2.344 | 1.00 |
| 100_D | 223_R | 2.272 | 1.00 |
| 17_L | 77_R | 2.217 | 1.00 |
| 168_I | 219_I | 2.216 | 1.00 |
| 241_D | 253_K | 2.175 | 1.00 |
| 4_L | 167_V | 2.151 | 1.00 |
| 10_T | 84_K | 2.133 | 1.00 |
| 97_S | 100_D | 2.123 | 1.00 |
| 137_N | 140_G | 2.110 | 1.00 |
| 3_I | 219_I | 2.065 | 1.00 |
| 244_S | 253_K | 1.966 | 1.00 |
| 61_A | 65_H | 1.961 | 1.00 |
| 187_E | 248_G | 1.924 | 1.00 |
| 96_F | 217_R | 1.901 | 1.00 |
| 228_E | 231_T | 1.859 | 1.00 |
| 246_S | 249_E | 1.802 | 1.00 |
| 13_Y | 82_A | 1.756 | 1.00 |
| 196_E | 255_Y | 1.734 | 1.00 |
| 131_M | 178_S | 1.713 | 1.00 |
| 26_E | 154_K | 1.691 | 1.00 |
| 105_Q | 121_L | 1.683 | 1.00 |
| 103_F | 107_H | 1.666 | 1.00 |
| 194_L | 253_K | 1.665 | 1.00 |
| 96_F | 100_D | 1.662 | 1.00 |
| 8_A | 11_L | 1.640 | 1.00 |
| 151_I | 178_S | 1.636 | 1.00 |
| 219_I | 224_L | 1.615 | 1.00 |
| 5_I | 87_V | 1.604 | 1.00 |
| 219_I | 230_L | 1.604 | 1.00 |
| 100_D | 220_I | 1.601 | 1.00 |
| 5_I | 216_S | 1.597 | 1.00 |
| 31_S | 67_W | 1.575 | 0.99 |
| 96_F | 101_F | 1.571 | 0.99 |
| 38_A | 64_F | 1.570 | 0.99 |
| 59_I | 63_R | 1.549 | 0.99 |
| 214_L | 236_E | 1.542 | 0.99 |
| 192_V | 249_E | 1.535 | 0.99 |
| 104_A | 216_S | 1.526 | 0.99 |
| 26_E | 158_A | 1.514 | 0.99 |
| 109_R | 158_A | 1.508 | 0.99 |
| 231_T | 250_L | 1.506 | 0.99 |
| 58_G | 62_A | 1.491 | 0.99 |
| 96_F | 104_A | 1.475 | 0.99 |
| 5_I | 108_L | 1.462 | 0.99 |
| 37_E | 135_L | 1.449 | 0.99 |
| 227_P | 250_L | 1.411 | 0.99 |
| 151_I | 179_V | 1.410 | 0.99 |
| 86_D | 206_F | 1.391 | 0.98 |
| 103_F | 220_I | 1.391 | 0.98 |
| 141_K | 145_Q | 1.381 | 0.98 |
| 2_L | 165_N | 1.365 | 0.98 |
| 191_P | 250_L | 1.354 | 0.98 |
| 15_S | 77_R | 1.353 | 0.98 |
| 90_G | 210_K | 1.352 | 0.98 |
| 46_I | 52_I | 1.350 | 0.98 |
| 4_L | 155_L | 1.340 | 0.98 |
| 208_A | 212_R | 1.327 | 0.98 |
| 196_E | 201_F | 1.325 | 0.98 |
| 18_T | 81_L | 1.297 | 0.97 |
| 168_I | 191_P | 1.280 | 0.97 |
| 240_F | 250_L | 1.265 | 0.97 |
| 12_D | 84_K | 1.265 | 0.97 |
| 75_N | 125_Q | 1.261 | 0.96 |
| 154_K | 157_E | 1.258 | 0.96 |
| 62_A | 66_D | 1.252 | 0.96 |
| 224_L | 229_Q | 1.248 | 0.96 |
| 81_L | 96_F | 1.243 | 0.96 |
| 216_S | 220_I | 1.230 | 0.96 |
| 76_A | 123_L | 1.215 | 0.95 |
| 84_K | 94_E | 1.214 | 0.95 |
| 144_Y | 177_K | 1.208 | 0.95 |
| 99_D | 223_R | 1.205 | 0.95 |
| 113_G | 131_M | 1.204 | 0.95 |
| 52_I | 57_A | 1.202 | 0.95 |
| 91_L | 216_S | 1.201 | 0.95 |
| 221_E | 235_S | 1.197 | 0.95 |
| 77_R | 82_A | 1.194 | 0.95 |
| 28_L | 70_D | 1.191 | 0.95 |
| 83_F | 118_L | 1.190 | 0.95 |
| 225_T | 229_Q | 1.189 | 0.95 |
| 201_F | 253_K | 1.188 | 0.95 |
| 207_Y | 254_R | 1.158 | 0.94 |
| 37_E | 41_L | 1.151 | 0.93 |
| 96_F | 221_E | 1.133 | 0.93 |
| 80_I | 91_L | 1.126 | 0.92 |
| 148_G | 180_K | 1.116 | 0.92 |
| 47_S | 57_A | 1.114 | 0.92 |
| 196_E | 199_G | 1.107 | 0.91 |
| 12_D | 77_R | 1.104 | 0.91 |
| 118_L | 124_M | 1.089 | 0.90 |
| 30_N | 139_R | 1.088 | 0.90 |
| 47_S | 52_I | 1.084 | 0.90 |
| 239_F | 255_Y | 1.078 | 0.90 |
| 35_I | 114_L | 1.059 | 0.89 |
| 31_S | 35_I | 1.057 | 0.89 |
| 166_V | 227_P | 1.056 | 0.89 |
| 27_L | 154_K | 1.051 | 0.88 |
| 82_A | 126_P | 1.049 | 0.88 |
| 111_L | 179_V | 1.043 | 0.88 |
| 13_Y | 124_M | 1.041 | 0.88 |
| 190_K | 249_E | 1.026 | 0.87 |
| 53_S | 56_L | 1.024 | 0.86 |
| 37_E | 137_N | 1.022 | 0.86 |
| 159_L | 186_A | 1.021 | 0.86 |
| 195_D | 205_S | 1.018 | 0.86 |
| 32_Q | 36_H | 1.016 | 0.86 |
| 31_S | 146_F | 1.015 | 0.86 |
| 194_L | 201_F | 1.014 | 0.86 |
| 168_I | 230_L | 1.012 | 0.86 |
| 102_D | 106_Q | 1.008 | 0.85 |
| 41_L | 46_I | 1.007 | 0.85 |
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 | |
| 4glxA | 1 | 0.3256 | 23.5 | 0.962 | Contact Map |
| 3eyiA | 2 | 0.2403 | 18.7 | 0.964 | Contact Map |
| 4gfjA | 1 | 0.0736 | 12.5 | 0.967 | Contact Map |
| 2yfvC | 1 | 0.2209 | 9.6 | 0.968 | Contact Map |
| 3bbnB | 1 | 0.4767 | 9.5 | 0.968 | Contact Map |
| 4ou0A | 1 | 0.2287 | 8.6 | 0.969 | Contact Map |
| 3hixA | 3 | 0.3333 | 7.1 | 0.97 | Contact Map |
| 2duyA | 1 | 0.2481 | 6.4 | 0.971 | Contact Map |
| 3sgiA | 1 | 0 | 6.4 | 0.971 | Contact Map |
| 4a1qA | 2 | 0.2597 | 5.8 | 0.971 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)