| hfh |
| ID: | 1508809591 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 236 (230) | ||
| Sequences: | 2836 (1895.6) | ||
| Seq/Len: | 12.330 | ||
| Nf(neff/√len): | 125.0 |
HHblits Results: (2016_02)
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: 12.330).
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 |
| 207_I | 211_V | 4.463 | 1.00 |
| 171_K | 174_L | 3.702 | 1.00 |
| 89_C | 93_T | 3.283 | 1.00 |
| 33_L | 37_H | 3.234 | 1.00 |
| 188_E | 193_K | 3.196 | 1.00 |
| 11_K | 86_E | 2.838 | 1.00 |
| 148_K | 151_H | 2.799 | 1.00 |
| 63_Y | 67_A | 2.650 | 1.00 |
| 107_A | 111_W | 2.449 | 1.00 |
| 105_E | 216_M | 2.394 | 1.00 |
| 26_G | 30_G | 2.367 | 1.00 |
| 30_G | 34_W | 2.339 | 1.00 |
| 32_A | 62_I | 2.220 | 1.00 |
| 151_H | 165_L | 2.189 | 1.00 |
| 113_F | 206_G | 2.115 | 1.00 |
| 92_G | 96_T | 2.109 | 1.00 |
| 29_L | 33_L | 2.083 | 1.00 |
| 32_A | 69_G | 2.076 | 1.00 |
| 15_F | 18_N | 1.975 | 1.00 |
| 95_F | 220_M | 1.901 | 1.00 |
| 136_V | 144_K | 1.847 | 1.00 |
| 12_Y | 15_F | 1.832 | 1.00 |
| 131_L | 159_S | 1.789 | 1.00 |
| 22_W | 76_G | 1.728 | 1.00 |
| 18_N | 94_F | 1.700 | 1.00 |
| 25_G | 72_M | 1.673 | 1.00 |
| 158_G | 164_A | 1.666 | 1.00 |
| 9_C | 13_L | 1.649 | 1.00 |
| 25_G | 69_G | 1.641 | 1.00 |
| 220_M | 224_M | 1.623 | 1.00 |
| 109_G | 213_A | 1.615 | 1.00 |
| 110_I | 114_V | 1.593 | 1.00 |
| 131_L | 147_V | 1.581 | 1.00 |
| 170_L | 174_L | 1.560 | 1.00 |
| 79_G | 82_G | 1.523 | 1.00 |
| 219_E | 223_S | 1.523 | 1.00 |
| 18_N | 21_F | 1.518 | 1.00 |
| 99_V | 220_M | 1.505 | 1.00 |
| 224_M | 228_C | 1.458 | 1.00 |
| 18_N | 22_W | 1.458 | 1.00 |
| 34_W | 38_D | 1.452 | 1.00 |
| 92_G | 227_C | 1.450 | 1.00 |
| 155_D | 186_F | 1.441 | 1.00 |
| 159_S | 191_H | 1.438 | 1.00 |
| 111_W | 115_N | 1.431 | 1.00 |
| 88_Q | 92_G | 1.429 | 1.00 |
| 203_Y | 207_I | 1.393 | 0.99 |
| 77_F | 80_C | 1.371 | 0.99 |
| 223_S | 226_L | 1.368 | 0.99 |
| 77_F | 81_Y | 1.355 | 0.99 |
| 29_L | 70_A | 1.346 | 0.99 |
| 11_K | 15_F | 1.344 | 0.99 |
| 148_K | 189_D | 1.325 | 0.99 |
| 78_L | 90_L | 1.321 | 0.99 |
| 127_Y | 147_V | 1.309 | 0.99 |
| 11_K | 18_N | 1.306 | 0.99 |
| 36_R | 66_I | 1.299 | 0.99 |
| 95_F | 227_C | 1.291 | 0.99 |
| 219_E | 222_L | 1.282 | 0.99 |
| 81_Y | 90_L | 1.275 | 0.99 |
| 147_V | 151_H | 1.274 | 0.99 |
| 13_L | 18_N | 1.273 | 0.99 |
| 213_A | 219_E | 1.269 | 0.99 |
| 151_H | 173_N | 1.265 | 0.99 |
| 188_E | 196_D | 1.254 | 0.99 |
| 191_H | 195_D | 1.254 | 0.99 |
| 127_Y | 159_S | 1.252 | 0.99 |
| 223_S | 227_C | 1.242 | 0.98 |
| 15_F | 19_F | 1.240 | 0.98 |
| 25_G | 76_G | 1.239 | 0.98 |
| 14_L | 94_F | 1.234 | 0.98 |
| 102_F | 106_V | 1.228 | 0.98 |
| 164_A | 189_D | 1.215 | 0.98 |
| 218_F | 222_L | 1.200 | 0.98 |
| 219_E | 226_L | 1.197 | 0.98 |
| 206_G | 210_I | 1.196 | 0.98 |
| 147_V | 159_S | 1.195 | 0.98 |
| 130_A | 147_V | 1.194 | 0.98 |
| 14_L | 18_N | 1.171 | 0.98 |
| 95_F | 224_M | 1.163 | 0.97 |
| 88_Q | 91_L | 1.160 | 0.97 |
| 70_A | 74_F | 1.157 | 0.97 |
| 88_Q | 231_R | 1.154 | 0.97 |
| 220_M | 223_S | 1.150 | 0.97 |
| 95_F | 99_V | 1.149 | 0.97 |
| 11_K | 22_W | 1.139 | 0.97 |
| 124_K | 160_S | 1.138 | 0.97 |
| 82_G | 90_L | 1.118 | 0.96 |
| 217_I | 223_S | 1.117 | 0.96 |
| 193_K | 196_D | 1.113 | 0.96 |
| 82_G | 91_L | 1.108 | 0.96 |
| 81_Y | 87_S | 1.106 | 0.96 |
| 224_M | 227_C | 1.090 | 0.96 |
| 10_I | 222_L | 1.082 | 0.96 |
| 170_L | 173_N | 1.081 | 0.95 |
| 197_L | 201_K | 1.073 | 0.95 |
| 26_G | 73_M | 1.069 | 0.95 |
| 28_I | 68_V | 1.052 | 0.95 |
| 32_A | 66_I | 1.051 | 0.94 |
| 225_V | 228_C | 1.047 | 0.94 |
| 6_C | 9_C | 1.046 | 0.94 |
| 157_C | 164_A | 1.045 | 0.94 |
| 79_G | 83_A | 1.043 | 0.94 |
| 83_A | 91_L | 1.038 | 0.94 |
| 210_I | 214_V | 1.023 | 0.93 |
| 135_V | 148_K | 1.022 | 0.93 |
| 161_T | 164_A | 1.022 | 0.93 |
| 98_L | 219_E | 1.020 | 0.93 |
| 11_K | 14_L | 1.018 | 0.93 |
| 34_W | 63_Y | 1.012 | 0.93 |
| 18_N | 80_C | 1.004 | 0.93 |
| 28_I | 32_A | 1.004 | 0.93 |
| 220_M | 228_C | 1.000 | 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 | |
| 3x0fA | 2 | 0 | 99.5 | 0.655 | Contact Map |
| 2m7zA | 1 | 0.3432 | 99.3 | 0.682 | Contact Map |
| 2ks1B | 1 | 0.1864 | 6.3 | 0.946 | Contact Map |
| 2kluA | 1 | 0.161 | 5.3 | 0.948 | Contact Map |
| 2jwaA | 2 | 0.1864 | 3.8 | 0.951 | Contact Map |
| 2m20A | 2 | 0.1525 | 3.1 | 0.953 | Contact Map |
| 4b1qP | 1 | 0.1144 | 3 | 0.954 | Contact Map |
| 4pxzA | 1 | 0.1907 | 2.8 | 0.955 | Contact Map |
| 4or2A | 2 | 0.4661 | 2.7 | 0.955 | Contact Map |
| 3pblA | 2 | 0.1356 | 2.5 | 0.956 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)