| T0805 |
| ID: | 1401904884 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 214 (208) | ||
| Sequences: | 2245 (1793) | ||
| Seq/Len: | 10.793 | ||
| Nf(neff/√len): | 124.3 |
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: 10.793).
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 |
| 34_E | 151_R | 3.014 | 1.00 |
| 52_Q | 210_H | 2.625 | 1.00 |
| 53_W | 140_A | 2.455 | 1.00 |
| 29_R | 33_M | 2.366 | 1.00 |
| 65_I | 170_V | 2.304 | 1.00 |
| 29_R | 57_E | 2.241 | 1.00 |
| 25_K | 191_Y | 2.223 | 1.00 |
| 154_G | 192_T | 2.211 | 1.00 |
| 169_K | 172_D | 2.154 | 1.00 |
| 59_A | 63_K | 2.144 | 1.00 |
| 7_V | 10_V | 2.084 | 1.00 |
| 20_R | 188_P | 2.076 | 1.00 |
| 145_C | 157_W | 1.972 | 1.00 |
| 59_A | 62_K | 1.965 | 1.00 |
| 205_A | 209_T | 1.932 | 1.00 |
| 66_A | 76_Y | 1.858 | 1.00 |
| 171_A | 183_Q | 1.845 | 1.00 |
| 37_E | 40_L | 1.838 | 1.00 |
| 153_L | 191_Y | 1.815 | 1.00 |
| 28_P | 31_V | 1.787 | 1.00 |
| 68_V | 173_V | 1.785 | 1.00 |
| 141_V | 185_G | 1.785 | 1.00 |
| 20_R | 156_C | 1.768 | 1.00 |
| 149_R | 154_G | 1.734 | 1.00 |
| 22_D | 25_K | 1.697 | 1.00 |
| 166_G | 169_K | 1.692 | 1.00 |
| 7_V | 11_L | 1.685 | 1.00 |
| 33_M | 206_E | 1.637 | 1.00 |
| 31_V | 153_L | 1.628 | 1.00 |
| 6_S | 9_E | 1.627 | 1.00 |
| 35_C | 148_L | 1.612 | 1.00 |
| 64_A | 173_V | 1.610 | 1.00 |
| 105_A | 108_M | 1.604 | 1.00 |
| 145_C | 155_S | 1.597 | 1.00 |
| 72_N | 75_G | 1.566 | 1.00 |
| 61_K | 173_V | 1.559 | 1.00 |
| 35_C | 144_F | 1.552 | 1.00 |
| 94_M | 97_V | 1.520 | 1.00 |
| 57_E | 212_N | 1.515 | 1.00 |
| 60_A | 63_K | 1.505 | 1.00 |
| 9_E | 13_T | 1.504 | 1.00 |
| 112_P | 115_L | 1.487 | 1.00 |
| 13_T | 149_R | 1.477 | 1.00 |
| 61_K | 64_A | 1.472 | 1.00 |
| 35_C | 189_I | 1.464 | 1.00 |
| 27_V | 153_L | 1.439 | 1.00 |
| 135_A | 159_T | 1.433 | 1.00 |
| 5_L | 9_E | 1.397 | 0.99 |
| 39_A | 144_F | 1.388 | 0.99 |
| 38_L | 147_A | 1.387 | 0.99 |
| 153_L | 189_I | 1.386 | 0.99 |
| 120_K | 123_E | 1.374 | 0.99 |
| 44_T | 51_W | 1.371 | 0.99 |
| 119_L | 123_E | 1.366 | 0.99 |
| 148_L | 189_I | 1.346 | 0.99 |
| 73_A | 77_L | 1.296 | 0.99 |
| 109_H | 113_V | 1.293 | 0.99 |
| 141_V | 187_L | 1.290 | 0.99 |
| 36_L | 55_F | 1.286 | 0.99 |
| 12_T | 41_Q | 1.286 | 0.99 |
| 33_M | 205_A | 1.275 | 0.99 |
| 53_W | 208_V | 1.274 | 0.99 |
| 40_L | 208_V | 1.265 | 0.99 |
| 58_D | 61_K | 1.259 | 0.99 |
| 130_G | 182_S | 1.256 | 0.99 |
| 161_H | 186_L | 1.254 | 0.99 |
| 137_L | 184_G | 1.243 | 0.98 |
| 31_V | 151_R | 1.242 | 0.98 |
| 75_G | 78_S | 1.233 | 0.98 |
| 7_V | 150_S | 1.231 | 0.98 |
| 104_L | 107_H | 1.224 | 0.98 |
| 34_E | 38_L | 1.223 | 0.98 |
| 148_L | 155_S | 1.207 | 0.98 |
| 84_Y | 144_F | 1.198 | 0.98 |
| 16_S | 156_C | 1.197 | 0.98 |
| 45_G | 159_T | 1.185 | 0.98 |
| 132_S | 159_T | 1.183 | 0.98 |
| 117_P | 120_K | 1.166 | 0.97 |
| 27_V | 31_V | 1.164 | 0.97 |
| 38_L | 151_R | 1.160 | 0.97 |
| 107_H | 110_R | 1.142 | 0.97 |
| 32_L | 189_I | 1.121 | 0.97 |
| 69_Y | 186_L | 1.119 | 0.96 |
| 36_L | 209_T | 1.111 | 0.96 |
| 61_K | 212_N | 1.106 | 0.96 |
| 108_M | 111_A | 1.105 | 0.96 |
| 78_S | 81_A | 1.098 | 0.96 |
| 68_V | 169_K | 1.089 | 0.96 |
| 19_K | 193_Q | 1.066 | 0.95 |
| 139_P | 142_W | 1.063 | 0.95 |
| 140_A | 208_V | 1.063 | 0.95 |
| 131_V | 135_A | 1.058 | 0.95 |
| 35_C | 153_L | 1.055 | 0.95 |
| 72_N | 78_S | 1.053 | 0.95 |
| 102_T | 107_H | 1.046 | 0.94 |
| 93_R | 98_R | 1.044 | 0.94 |
| 27_V | 32_L | 1.037 | 0.94 |
| 26_P | 59_A | 1.032 | 0.94 |
| 135_A | 138_F | 1.029 | 0.94 |
| 44_T | 50_G | 1.028 | 0.94 |
| 37_E | 205_A | 1.021 | 0.93 |
| 177_P | 180_E | 1.020 | 0.93 |
| 118_C | 123_E | 1.014 | 0.93 |
| 102_T | 105_A | 1.014 | 0.93 |
| 9_E | 12_T | 1.003 | 0.93 |
| 75_G | 81_A | 1.001 | 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 | |
| 3ge6A | 2 | 0.9533 | 100 | 0.298 | Contact Map |
| 3of4A | 3 | 0.9346 | 100 | 0.302 | Contact Map |
| 3gbhA | 4 | 0.9486 | 100 | 0.303 | Contact Map |
| 3gagA | 4 | 0.9393 | 100 | 0.304 | Contact Map |
| 2b67A | 4 | 0.8972 | 100 | 0.306 | Contact Map |
| 3gr3A | 2 | 0.9299 | 100 | 0.306 | Contact Map |
| 1vfrA | 2 | 0.9299 | 100 | 0.306 | Contact Map |
| 2h0uA | 1 | 0.8645 | 100 | 0.307 | Contact Map |
| 2hayA | 4 | 0.9346 | 100 | 0.308 | Contact Map |
| 1bkjA | 2 | 0.8411 | 100 | 0.311 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)