| T0772 60-265 |
| ID: | 1399746164 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 206 (203) | ||
| Sequences: | 1554 (1194.1) | ||
| Seq/Len: | 7.655 | ||
| Nf(neff/√len): | 83.8 |
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: 7.655).
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 |
| 15_D | 18_D | 5.393 | 1.00 |
| 62_E | 199_R | 3.756 | 1.00 |
| 52_Q | 205_E | 3.560 | 1.00 |
| 60_H | 129_D | 3.000 | 1.00 |
| 53_K | 181_A | 2.996 | 1.00 |
| 64_Q | 197_S | 2.976 | 1.00 |
| 23_E | 51_K | 2.811 | 1.00 |
| 58_Q | 129_D | 2.780 | 1.00 |
| 62_E | 200_N | 2.753 | 1.00 |
| 148_T | 160_N | 2.619 | 1.00 |
| 21_A | 51_K | 2.537 | 1.00 |
| 62_E | 127_V | 2.480 | 1.00 |
| 55_N | 181_A | 2.402 | 1.00 |
| 152_I | 157_V | 2.401 | 1.00 |
| 56_D | 133_T | 2.266 | 1.00 |
| 56_D | 134_A | 2.226 | 1.00 |
| 60_H | 127_V | 2.128 | 1.00 |
| 61_I | 81_I | 2.127 | 1.00 |
| 58_Q | 204_R | 2.111 | 1.00 |
| 19_L | 39_F | 2.072 | 1.00 |
| 131_I | 152_I | 2.044 | 1.00 |
| 40_T | 197_S | 2.040 | 1.00 |
| 81_I | 130_I | 2.019 | 1.00 |
| 91_V | 198_F | 1.998 | 1.00 |
| 61_I | 128_Y | 1.963 | 1.00 |
| 83_L | 151_V | 1.901 | 1.00 |
| 58_Q | 131_I | 1.849 | 1.00 |
| 35_H | 40_T | 1.780 | 1.00 |
| 60_H | 202_W | 1.721 | 1.00 |
| 19_L | 34_V | 1.716 | 1.00 |
| 157_V | 160_N | 1.706 | 1.00 |
| 106_G | 158_L | 1.691 | 1.00 |
| 61_I | 201_I | 1.678 | 1.00 |
| 63_W | 105_T | 1.661 | 1.00 |
| 109_Y | 189_H | 1.655 | 1.00 |
| 38_V | 197_S | 1.621 | 1.00 |
| 138_K | 142_S | 1.611 | 1.00 |
| 11_I | 52_Q | 1.580 | 1.00 |
| 129_D | 152_I | 1.576 | 1.00 |
| 89_V | 130_I | 1.575 | 1.00 |
| 50_T | 54_F | 1.548 | 1.00 |
| 54_F | 203_I | 1.545 | 1.00 |
| 5_T | 12_V | 1.536 | 1.00 |
| 81_I | 128_Y | 1.521 | 1.00 |
| 15_D | 20_S | 1.483 | 0.99 |
| 9_D | 204_R | 1.473 | 0.99 |
| 84_Q | 132_Y | 1.463 | 0.99 |
| 165_L | 168_T | 1.453 | 0.99 |
| 121_K | 124_E | 1.416 | 0.99 |
| 126_N | 154_N | 1.410 | 0.99 |
| 14_F | 34_V | 1.385 | 0.99 |
| 17_K | 34_V | 1.383 | 0.99 |
| 65_V | 77_G | 1.377 | 0.99 |
| 78_N | 88_E | 1.373 | 0.99 |
| 100_Y | 103_G | 1.341 | 0.99 |
| 148_T | 161_H | 1.315 | 0.98 |
| 59_M | 184_I | 1.308 | 0.98 |
| 89_V | 151_V | 1.305 | 0.98 |
| 59_M | 203_I | 1.291 | 0.98 |
| 11_I | 54_F | 1.279 | 0.98 |
| 10_A | 204_R | 1.258 | 0.98 |
| 33_D | 42_N | 1.239 | 0.97 |
| 84_Q | 134_A | 1.237 | 0.97 |
| 5_T | 9_D | 1.223 | 0.97 |
| 47_D | 185_I | 1.221 | 0.97 |
| 143_Y | 146_H | 1.216 | 0.97 |
| 150_T | 160_N | 1.200 | 0.96 |
| 89_V | 128_Y | 1.196 | 0.96 |
| 57_F | 84_Q | 1.176 | 0.96 |
| 22_W | 186_L | 1.173 | 0.96 |
| 116_A | 156_V | 1.152 | 0.95 |
| 132_Y | 149_V | 1.130 | 0.95 |
| 79_S | 187_Q | 1.124 | 0.94 |
| 56_D | 136_T | 1.117 | 0.94 |
| 12_V | 202_W | 1.104 | 0.94 |
| 83_L | 89_V | 1.103 | 0.94 |
| 170_W | 173_F | 1.093 | 0.93 |
| 59_M | 201_I | 1.091 | 0.93 |
| 10_A | 202_W | 1.089 | 0.93 |
| 136_T | 145_T | 1.086 | 0.93 |
| 50_T | 184_I | 1.074 | 0.92 |
| 32_W | 77_G | 1.060 | 0.92 |
| 82_F | 185_I | 1.039 | 0.91 |
| 151_V | 158_L | 1.037 | 0.91 |
| 150_T | 157_V | 1.026 | 0.90 |
| 88_E | 92_L | 1.014 | 0.89 |
| 148_T | 162_T | 1.012 | 0.89 |
| 63_W | 128_Y | 1.012 | 0.89 |
| 88_E | 91_V | 1.004 | 0.89 |
| 108_I | 111_Q | 1.002 | 0.88 |
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 | |
| 4jqtA | 2 | 0.8835 | 100 | 0.216 | Contact Map |
| 3hbkA | 1 | 0.8883 | 100 | 0.217 | Contact Map |
| 3u1xA | 2 | 0.8835 | 100 | 0.218 | Contact Map |
| 3h3lA | 3 | 0.8835 | 100 | 0.224 | Contact Map |
| 3osdA | 1 | 0.8883 | 100 | 0.225 | Contact Map |
| 3s5qA | 1 | 0.8592 | 100 | 0.275 | Contact Map |
| 3immA | 3 | 0.8252 | 100 | 0.284 | Contact Map |
| 4b1mA | 3 | 0.767 | 100 | 0.464 | Contact Map |
| 1oq1A | 4 | 0.8398 | 99.9 | 0.595 | Contact Map |
| 4ccdA | 1 | 0.8107 | 99.6 | 0.726 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)