| T0854 |
| ID: | 1405362914 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 212 (201) | ||
| Sequences: | 13054 (10284) | ||
| Seq/Len: | 64.945 | ||
| Nf(neff/√len): | 725.4 |
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: 64.945).
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 |
| 172_G | 177_D | 5.057 | 1.00 |
| 11_K | 167_E | 4.171 | 1.00 |
| 156_K | 160_H | 2.864 | 1.00 |
| 127_R | 132_D | 2.732 | 1.00 |
| 104_D | 134_Y | 2.543 | 1.00 |
| 146_N | 150_H | 2.512 | 1.00 |
| 158_L | 168_A | 2.473 | 1.00 |
| 182_E | 198_A | 2.420 | 1.00 |
| 12_A | 163_I | 2.403 | 1.00 |
| 156_K | 159_E | 2.358 | 1.00 |
| 111_G | 136_S | 2.244 | 1.00 |
| 100_R | 104_D | 2.177 | 1.00 |
| 116_T | 122_M | 2.167 | 1.00 |
| 10_I | 187_P | 2.141 | 1.00 |
| 15_Y | 112_L | 2.116 | 1.00 |
| 115_C | 153_P | 2.076 | 1.00 |
| 202_E | 206_E | 2.058 | 1.00 |
| 179_L | 183_A | 2.015 | 1.00 |
| 181_A | 188_F | 2.008 | 1.00 |
| 107_K | 136_S | 1.995 | 1.00 |
| 45_S | 48_N | 1.970 | 1.00 |
| 113_G | 137_I | 1.936 | 1.00 |
| 158_L | 186_V | 1.927 | 1.00 |
| 178_R | 188_F | 1.816 | 1.00 |
| 146_N | 152_E | 1.807 | 1.00 |
| 164_G | 167_E | 1.782 | 1.00 |
| 112_L | 135_F | 1.745 | 1.00 |
| 14_I | 115_C | 1.731 | 1.00 |
| 170_F | 181_A | 1.675 | 1.00 |
| 99_F | 204_H | 1.670 | 1.00 |
| 158_L | 165_P | 1.664 | 1.00 |
| 13_V | 171_V | 1.660 | 1.00 |
| 20_V | 171_V | 1.650 | 1.00 |
| 187_P | 198_A | 1.609 | 1.00 |
| 137_I | 160_H | 1.592 | 1.00 |
| 107_K | 134_Y | 1.575 | 1.00 |
| 13_V | 106_L | 1.560 | 1.00 |
| 163_I | 168_A | 1.557 | 1.00 |
| 203_H | 206_E | 1.492 | 1.00 |
| 154_L | 172_G | 1.480 | 1.00 |
| 13_V | 110_V | 1.478 | 1.00 |
| 14_I | 157_V | 1.460 | 1.00 |
| 12_A | 161_F | 1.440 | 1.00 |
| 105_T | 109_R | 1.416 | 1.00 |
| 17_C | 22_F | 1.402 | 0.99 |
| 21_M | 99_F | 1.398 | 0.99 |
| 14_I | 170_F | 1.378 | 0.99 |
| 98_G | 101_E | 1.367 | 0.99 |
| 62_E | 65_A | 1.367 | 0.99 |
| 18_D | 24_S | 1.343 | 0.99 |
| 105_T | 208_I | 1.336 | 0.99 |
| 113_G | 161_F | 1.333 | 0.99 |
| 34_R | 85_D | 1.329 | 0.99 |
| 17_C | 122_M | 1.326 | 0.99 |
| 95_M | 131_L | 1.291 | 0.99 |
| 168_A | 186_V | 1.277 | 0.99 |
| 139_M | 160_H | 1.261 | 0.99 |
| 102_A | 208_I | 1.245 | 0.98 |
| 123_D | 132_D | 1.237 | 0.98 |
| 170_F | 177_D | 1.222 | 0.98 |
| 34_R | 38_M | 1.222 | 0.98 |
| 14_I | 168_A | 1.218 | 0.98 |
| 154_L | 170_F | 1.187 | 0.98 |
| 169_L | 189_V | 1.184 | 0.98 |
| 139_M | 157_V | 1.177 | 0.98 |
| 115_C | 157_V | 1.173 | 0.98 |
| 178_R | 197_A | 1.172 | 0.98 |
| 154_L | 177_D | 1.162 | 0.97 |
| 122_M | 140_T | 1.154 | 0.97 |
| 10_I | 169_L | 1.148 | 0.97 |
| 116_T | 140_T | 1.142 | 0.97 |
| 175_E | 179_L | 1.141 | 0.97 |
| 199_Y | 210_L | 1.140 | 0.97 |
| 189_V | 201_M | 1.138 | 0.97 |
| 105_T | 108_G | 1.138 | 0.97 |
| 78_V | 82_G | 1.135 | 0.97 |
| 114_V | 135_F | 1.128 | 0.97 |
| 12_A | 168_A | 1.119 | 0.96 |
| 104_D | 108_G | 1.117 | 0.96 |
| 12_A | 111_G | 1.099 | 0.96 |
| 18_D | 118_R | 1.097 | 0.96 |
| 101_E | 205_R | 1.094 | 0.96 |
| 145_T | 152_E | 1.092 | 0.96 |
| 106_L | 110_V | 1.091 | 0.96 |
| 123_D | 127_R | 1.091 | 0.96 |
| 20_V | 177_D | 1.081 | 0.95 |
| 38_M | 85_D | 1.077 | 0.95 |
| 154_L | 186_V | 1.076 | 0.95 |
| 201_M | 207_I | 1.075 | 0.95 |
| 17_C | 114_V | 1.073 | 0.95 |
| 35_I | 39_M | 1.072 | 0.95 |
| 152_E | 156_K | 1.053 | 0.95 |
| 107_K | 112_L | 1.050 | 0.94 |
| 38_M | 79_R | 1.046 | 0.94 |
| 151_P | 155_L | 1.046 | 0.94 |
| 17_C | 118_R | 1.041 | 0.94 |
| 170_F | 186_V | 1.035 | 0.94 |
| 14_I | 186_V | 1.033 | 0.94 |
| 101_E | 104_D | 1.030 | 0.94 |
| 76_E | 79_R | 1.030 | 0.94 |
| 154_L | 180_S | 1.022 | 0.93 |
| 102_A | 204_H | 1.020 | 0.93 |
| 137_I | 161_F | 1.010 | 0.93 |
| 34_R | 37_E | 1.004 | 0.93 |
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 | |
| 2om6A | 2 | 0.9623 | 100 | 0.258 | Contact Map |
| 2nyvA | 1 | 0.9434 | 100 | 0.29 | Contact Map |
| 3ed5A | 1 | 0.9434 | 100 | 0.311 | Contact Map |
| 4eekA | 1 | 0.9434 | 100 | 0.312 | Contact Map |
| 2hszA | 2 | 0.9623 | 100 | 0.316 | Contact Map |
| 3l5kA | 1 | 0.9623 | 100 | 0.32 | Contact Map |
| 4g9bA | 1 | 0.9481 | 100 | 0.322 | Contact Map |
| 3qxgA | 2 | 0.9387 | 100 | 0.323 | Contact Map |
| 3smvA | 1 | 0.9434 | 100 | 0.324 | Contact Map |
| 2zg6A | 2 | 0.8679 | 100 | 0.327 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)