| T0805 |
| ID: | 1401903394 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 214 (206) | ||
| Sequences: | 816 (634) | ||
| Seq/Len: | 3.961 | ||
| Nf(neff/√len): | 44.2 |
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: 3.961).
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 | 3.794 | 1.00 |
| 154_G | 192_T | 2.750 | 1.00 |
| 52_Q | 210_H | 2.743 | 1.00 |
| 169_K | 172_D | 2.518 | 1.00 |
| 153_L | 191_Y | 2.401 | 1.00 |
| 13_T | 149_R | 2.400 | 1.00 |
| 20_R | 188_P | 2.390 | 1.00 |
| 7_V | 11_L | 2.315 | 1.00 |
| 35_C | 148_L | 2.264 | 1.00 |
| 148_L | 155_S | 2.263 | 1.00 |
| 145_C | 155_S | 2.175 | 1.00 |
| 21_L | 25_K | 2.163 | 1.00 |
| 29_R | 33_M | 2.156 | 1.00 |
| 35_C | 189_I | 2.147 | 1.00 |
| 148_L | 189_I | 2.094 | 1.00 |
| 59_A | 62_K | 1.955 | 1.00 |
| 11_L | 143_S | 1.950 | 1.00 |
| 65_I | 170_V | 1.905 | 1.00 |
| 59_A | 63_K | 1.882 | 1.00 |
| 145_C | 157_W | 1.869 | 1.00 |
| 205_A | 209_T | 1.842 | 1.00 |
| 53_W | 140_A | 1.770 | 0.99 |
| 176_I | 179_D | 1.756 | 0.99 |
| 149_R | 154_G | 1.741 | 0.99 |
| 29_R | 57_E | 1.713 | 0.99 |
| 32_L | 189_I | 1.646 | 0.99 |
| 61_K | 64_A | 1.626 | 0.99 |
| 21_L | 24_D | 1.612 | 0.99 |
| 27_V | 153_L | 1.602 | 0.99 |
| 37_E | 40_L | 1.591 | 0.98 |
| 64_A | 173_V | 1.580 | 0.98 |
| 44_T | 51_W | 1.548 | 0.98 |
| 171_A | 183_Q | 1.538 | 0.98 |
| 31_V | 151_R | 1.515 | 0.98 |
| 31_V | 153_L | 1.512 | 0.98 |
| 164_D | 169_K | 1.508 | 0.98 |
| 25_K | 191_Y | 1.488 | 0.97 |
| 35_C | 153_L | 1.481 | 0.97 |
| 27_V | 191_Y | 1.474 | 0.97 |
| 35_C | 144_F | 1.474 | 0.97 |
| 7_V | 10_V | 1.434 | 0.96 |
| 144_F | 189_I | 1.426 | 0.96 |
| 141_V | 187_L | 1.422 | 0.96 |
| 10_V | 152_G | 1.418 | 0.96 |
| 68_V | 173_V | 1.388 | 0.96 |
| 61_K | 173_V | 1.354 | 0.95 |
| 33_M | 206_E | 1.335 | 0.94 |
| 8_D | 151_R | 1.334 | 0.94 |
| 8_D | 38_L | 1.323 | 0.94 |
| 31_V | 34_E | 1.313 | 0.93 |
| 203_L | 207_S | 1.300 | 0.93 |
| 26_P | 59_A | 1.291 | 0.93 |
| 38_L | 151_R | 1.280 | 0.92 |
| 52_Q | 181_Y | 1.267 | 0.92 |
| 6_S | 9_E | 1.261 | 0.92 |
| 141_V | 185_G | 1.246 | 0.91 |
| 69_Y | 170_V | 1.245 | 0.91 |
| 49_Q | 202_R | 1.228 | 0.90 |
| 30_D | 33_M | 1.218 | 0.90 |
| 34_E | 38_L | 1.215 | 0.89 |
| 60_A | 63_K | 1.206 | 0.89 |
| 39_A | 43_P | 1.205 | 0.89 |
| 60_A | 64_A | 1.194 | 0.88 |
| 32_L | 36_L | 1.190 | 0.88 |
| 40_L | 208_V | 1.188 | 0.88 |
| 53_W | 208_V | 1.188 | 0.88 |
| 66_A | 77_L | 1.181 | 0.88 |
| 19_K | 195_I | 1.178 | 0.87 |
| 107_H | 110_R | 1.176 | 0.87 |
| 139_P | 185_G | 1.171 | 0.87 |
| 11_L | 42_A | 1.171 | 0.87 |
| 5_L | 150_S | 1.169 | 0.87 |
| 144_F | 155_S | 1.165 | 0.87 |
| 41_Q | 200_A | 1.158 | 0.86 |
| 36_L | 55_F | 1.118 | 0.83 |
| 28_P | 31_V | 1.111 | 0.83 |
| 170_V | 173_V | 1.110 | 0.83 |
| 146_L | 150_S | 1.107 | 0.83 |
| 69_Y | 186_L | 1.084 | 0.81 |
| 29_R | 211_W | 1.069 | 0.80 |
| 137_L | 184_G | 1.067 | 0.79 |
| 20_R | 156_C | 1.057 | 0.78 |
| 132_S | 182_S | 1.057 | 0.78 |
| 20_R | 190_A | 1.051 | 0.78 |
| 9_E | 13_T | 1.050 | 0.78 |
| 14_T | 190_A | 1.045 | 0.77 |
| 115_L | 144_F | 1.044 | 0.77 |
| 45_G | 159_T | 1.041 | 0.77 |
| 43_P | 51_W | 1.038 | 0.77 |
| 76_Y | 81_A | 1.036 | 0.76 |
| 63_K | 67_D | 1.028 | 0.76 |
| 67_D | 207_S | 1.025 | 0.75 |
| 36_L | 209_T | 1.016 | 0.75 |
| 154_G | 157_W | 1.012 | 0.74 |
| 47_N | 202_R | 1.009 | 0.74 |
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 | |
| 3gr3A | 2 | 0.9206 | 100 | 0.347 | Contact Map |
| 2h0uA | 1 | 0.7804 | 100 | 0.356 | Contact Map |
| 3of4A | 3 | 0.9112 | 100 | 0.368 | Contact Map |
| 2wzvA | 2 | 0.9206 | 100 | 0.37 | Contact Map |
| 1icrA | 2 | 0.9206 | 100 | 0.371 | Contact Map |
| 2hayA | 4 | 0.9206 | 100 | 0.372 | Contact Map |
| 3gagA | 4 | 0.9346 | 100 | 0.373 | Contact Map |
| 1vfrA | 2 | 0.9346 | 100 | 0.374 | Contact Map |
| 1noxA | 1 | 0.9159 | 100 | 0.375 | Contact Map |
| 3eo8A | 6 | 0.9206 | 100 | 0.375 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)