| 1EEOA |
| ID: | 1411762448 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 297 (271) | ||
| Sequences: | 1828 (1269.3) | ||
| Seq/Len: | 6.745 | ||
| Nf(neff/√len): | 77.1 |
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: 6.745).
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 |
| 103_S | 211_V | 3.934 | 1.00 |
| 82_L | 221_S | 3.016 | 1.00 |
| 43_N | 65_Y | 2.859 | 1.00 |
| 54_S | 69_S | 2.689 | 1.00 |
| 42_R | 93_H | 2.549 | 1.00 |
| 80_Y | 228_D | 2.289 | 1.00 |
| 91_C | 121_A | 2.240 | 1.00 |
| 98_V | 211_V | 2.211 | 1.00 |
| 218_I | 258_G | 2.163 | 1.00 |
| 155_R | 172_H | 2.104 | 1.00 |
| 97_M | 211_V | 2.045 | 1.00 |
| 85_G | 120_C | 2.034 | 1.00 |
| 179_P | 182_G | 2.027 | 1.00 |
| 50_P | 67_N | 2.025 | 1.00 |
| 226_L | 249_L | 1.993 | 1.00 |
| 55_R | 64_D | 1.951 | 1.00 |
| 70_L | 101_Q | 1.925 | 1.00 |
| 87_L | 90_T | 1.893 | 1.00 |
| 244_D | 247_K | 1.888 | 1.00 |
| 216_A | 261_Q | 1.866 | 1.00 |
| 112_V | 122_Q | 1.863 | 1.00 |
| 108_M | 172_H | 1.798 | 1.00 |
| 124_W | 172_H | 1.758 | 1.00 |
| 56_I | 70_L | 1.712 | 1.00 |
| 118_L | 121_A | 1.707 | 1.00 |
| 180_D | 216_A | 1.700 | 1.00 |
| 214_S | 221_S | 1.696 | 1.00 |
| 72_K | 255_F | 1.695 | 1.00 |
| 88_P | 121_A | 1.678 | 1.00 |
| 215_S | 220_R | 1.672 | 1.00 |
| 216_A | 219_G | 1.660 | 1.00 |
| 153_T | 176_T | 1.660 | 1.00 |
| 219_G | 261_Q | 1.650 | 1.00 |
| 253_R | 260_I | 1.612 | 1.00 |
| 99_W | 168_R | 1.612 | 1.00 |
| 54_S | 255_F | 1.608 | 1.00 |
| 95_W | 98_V | 1.601 | 1.00 |
| 19_Y | 22_I | 1.593 | 1.00 |
| 88_P | 118_L | 1.570 | 1.00 |
| 34_A | 50_P | 1.563 | 0.99 |
| 123_Y | 213_H | 1.552 | 0.99 |
| 156_Q | 169_E | 1.548 | 0.99 |
| 231_L | 276_G | 1.540 | 0.99 |
| 161_N | 164_T | 1.518 | 0.99 |
| 119_K | 215_S | 1.496 | 0.99 |
| 82_L | 225_C | 1.475 | 0.99 |
| 102_K | 168_R | 1.469 | 0.99 |
| 226_L | 269_S | 1.467 | 0.99 |
| 249_L | 259_L | 1.459 | 0.99 |
| 45_Y | 216_A | 1.455 | 0.99 |
| 108_M | 123_Y | 1.431 | 0.99 |
| 39_N | 43_N | 1.431 | 0.99 |
| 114_E | 119_K | 1.417 | 0.99 |
| 229_T | 248_V | 1.414 | 0.99 |
| 59_H | 100_E | 1.409 | 0.99 |
| 252_M | 259_L | 1.406 | 0.99 |
| 131_E | 142_T | 1.404 | 0.99 |
| 82_L | 259_L | 1.390 | 0.99 |
| 142_T | 158_E | 1.390 | 0.99 |
| 226_L | 252_M | 1.382 | 0.98 |
| 33_V | 36_L | 1.368 | 0.98 |
| 50_P | 69_S | 1.365 | 0.98 |
| 71_I | 259_L | 1.349 | 0.98 |
| 83_T | 211_V | 1.334 | 0.98 |
| 216_A | 220_R | 1.330 | 0.98 |
| 229_T | 252_M | 1.329 | 0.98 |
| 179_P | 183_V | 1.327 | 0.98 |
| 122_Q | 126_Q | 1.325 | 0.98 |
| 225_C | 259_L | 1.311 | 0.98 |
| 110_N | 119_K | 1.309 | 0.98 |
| 134_F | 141_L | 1.307 | 0.98 |
| 85_G | 110_N | 1.303 | 0.98 |
| 230_C | 248_V | 1.302 | 0.98 |
| 50_P | 259_L | 1.279 | 0.97 |
| 222_G | 260_I | 1.277 | 0.97 |
| 156_Q | 171_L | 1.261 | 0.97 |
| 56_I | 97_M | 1.258 | 0.97 |
| 71_I | 82_L | 1.246 | 0.97 |
| 227_A | 272_A | 1.244 | 0.96 |
| 184_P | 268_F | 1.236 | 0.96 |
| 15_W | 18_I | 1.220 | 0.96 |
| 51_F | 67_N | 1.214 | 0.96 |
| 72_K | 77_Q | 1.205 | 0.96 |
| 215_S | 261_Q | 1.204 | 0.96 |
| 96_E | 100_E | 1.204 | 0.96 |
| 265_Q | 268_F | 1.192 | 0.95 |
| 45_Y | 180_D | 1.186 | 0.95 |
| 55_R | 58_L | 1.183 | 0.95 |
| 110_N | 120_C | 1.179 | 0.95 |
| 215_S | 219_G | 1.175 | 0.95 |
| 119_K | 180_D | 1.171 | 0.95 |
| 216_A | 221_S | 1.168 | 0.95 |
| 39_N | 52_D | 1.166 | 0.94 |
| 50_P | 257_M | 1.150 | 0.94 |
| 65_Y | 68_A | 1.140 | 0.94 |
| 85_G | 216_A | 1.133 | 0.93 |
| 19_Y | 23_R | 1.131 | 0.93 |
| 266_L | 269_S | 1.131 | 0.93 |
| 84_Q | 93_H | 1.130 | 0.93 |
| 39_N | 42_R | 1.124 | 0.93 |
| 34_A | 67_N | 1.116 | 0.93 |
| 66_I | 83_T | 1.115 | 0.93 |
| 85_G | 119_K | 1.114 | 0.92 |
| 223_T | 260_I | 1.107 | 0.92 |
| 249_L | 260_I | 1.107 | 0.92 |
| 97_M | 108_M | 1.105 | 0.92 |
| 253_R | 256_R | 1.099 | 0.92 |
| 181_F | 216_A | 1.093 | 0.92 |
| 198_R | 228_D | 1.088 | 0.91 |
| 249_L | 253_R | 1.086 | 0.91 |
| 219_G | 265_Q | 1.081 | 0.91 |
| 173_F | 197_V | 1.069 | 0.90 |
| 144_I | 158_E | 1.068 | 0.90 |
| 120_C | 123_Y | 1.067 | 0.90 |
| 217_G | 220_R | 1.059 | 0.90 |
| 217_G | 256_R | 1.058 | 0.90 |
| 73_M | 79_S | 1.054 | 0.89 |
| 108_M | 213_H | 1.052 | 0.89 |
| 44_R | 48_V | 1.047 | 0.89 |
| 219_G | 223_T | 1.046 | 0.89 |
| 227_A | 269_S | 1.045 | 0.89 |
| 43_N | 48_V | 1.044 | 0.89 |
| 52_D | 55_R | 1.038 | 0.89 |
| 175_Y | 193_F | 1.037 | 0.88 |
| 197_V | 224_F | 1.030 | 0.88 |
| 108_M | 120_C | 1.028 | 0.88 |
| 230_C | 245_I | 1.025 | 0.88 |
| 212_V | 225_C | 1.023 | 0.88 |
| 54_S | 252_M | 1.015 | 0.87 |
| 260_I | 265_Q | 1.013 | 0.87 |
| 72_K | 79_S | 1.007 | 0.86 |
| 219_G | 222_G | 1.003 | 0.86 |
| 83_T | 94_F | 1.002 | 0.86 |
| 48_V | 218_I | 1.002 | 0.86 |
| 152_Y | 193_F | 1.001 | 0.86 |
| 145_S | 156_Q | 1.001 | 0.86 |
| 268_F | 272_A | 1.001 | 0.86 |
| 219_G | 260_I | 1.000 | 0.86 |
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 | |
| 4bjoA | 2 | 0.9428 | 100 | 0.05 | Contact Map |
| 2cm2A | 1 | 0.9461 | 100 | 0.071 | Contact Map |
| 1l8kA | 1 | 0.9192 | 100 | 0.081 | Contact Map |
| 2shpA | 2 | 0.9091 | 100 | 0.144 | Contact Map |
| 3ps5A | 1 | 0.9663 | 100 | 0.145 | Contact Map |
| 2b3oA | 1 | 0.9259 | 100 | 0.147 | Contact Map |
| 3i36A | 1 | 0.9226 | 100 | 0.151 | Contact Map |
| 1ygrA | 2 | 0.9764 | 100 | 0.155 | Contact Map |
| 3s3eA | 2 | 0.9091 | 100 | 0.155 | Contact Map |
| 4ge6A | 2 | 0.9394 | 100 | 0.156 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)