| 1E9EA |
| ID: | 1411761546 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 210 (195) | ||
| Sequences: | 10199 (7085.4) | ||
| Seq/Len: | 52.303 | ||
| Nf(neff/√len): | 507.4 |
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: 52.303).
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 |
| 137_D | 140_K | 4.316 | 1.00 |
| 180_K | 188_D | 4.311 | 1.00 |
| 27_A | 190_R | 3.837 | 1.00 |
| 23_K | 186_H | 3.397 | 1.00 |
| 131_L | 178_A | 3.146 | 1.00 |
| 132_Q | 175_M | 2.774 | 1.00 |
| 181_S | 184_A | 2.736 | 1.00 |
| 180_K | 184_A | 2.703 | 1.00 |
| 20_Q | 186_H | 2.389 | 1.00 |
| 23_K | 26_E | 2.327 | 1.00 |
| 134_Q | 179_S | 2.170 | 1.00 |
| 23_K | 183_E | 2.147 | 1.00 |
| 159_L | 163_H | 2.099 | 1.00 |
| 176_V | 185_V | 2.080 | 1.00 |
| 160_R | 164_Q | 2.049 | 1.00 |
| 27_A | 186_H | 2.031 | 1.00 |
| 174_K | 192_L | 2.026 | 1.00 |
| 187_E | 191_V | 1.974 | 1.00 |
| 133_L | 138_A | 1.908 | 1.00 |
| 182_I | 186_H | 1.897 | 1.00 |
| 20_Q | 189_I | 1.894 | 1.00 |
| 50_L | 53_S | 1.804 | 1.00 |
| 15_A | 133_L | 1.796 | 1.00 |
| 139_A | 143_A | 1.752 | 1.00 |
| 28_L | 190_R | 1.716 | 1.00 |
| 52_S | 56_Q | 1.705 | 1.00 |
| 25_V | 29_C | 1.670 | 1.00 |
| 130_F | 175_M | 1.660 | 1.00 |
| 22_R | 26_E | 1.659 | 1.00 |
| 127_L | 174_K | 1.659 | 1.00 |
| 27_A | 187_E | 1.647 | 1.00 |
| 113_D | 117_Q | 1.608 | 1.00 |
| 134_Q | 137_D | 1.585 | 1.00 |
| 82_K | 86_S | 1.584 | 1.00 |
| 19_T | 182_I | 1.560 | 1.00 |
| 188_D | 191_V | 1.560 | 1.00 |
| 34_R | 89_V | 1.554 | 1.00 |
| 106_A | 161_C | 1.542 | 1.00 |
| 184_A | 187_E | 1.542 | 1.00 |
| 46_E | 49_K | 1.519 | 1.00 |
| 137_D | 179_S | 1.457 | 1.00 |
| 9_L | 21_S | 1.441 | 1.00 |
| 133_L | 178_A | 1.436 | 1.00 |
| 186_H | 190_R | 1.415 | 1.00 |
| 184_A | 188_D | 1.415 | 1.00 |
| 20_Q | 23_K | 1.408 | 1.00 |
| 68_L | 96_Y | 1.402 | 0.99 |
| 155_Q | 159_L | 1.395 | 0.99 |
| 147_E | 150_E | 1.395 | 0.99 |
| 190_R | 194_E | 1.335 | 0.99 |
| 20_Q | 185_V | 1.315 | 0.99 |
| 33_H | 90_T | 1.313 | 0.99 |
| 135_L | 163_H | 1.307 | 0.99 |
| 6_L | 93_V | 1.303 | 0.99 |
| 154_F | 158_A | 1.291 | 0.99 |
| 177_D | 180_K | 1.289 | 0.99 |
| 83_E | 87_Q | 1.282 | 0.99 |
| 49_K | 53_S | 1.281 | 0.99 |
| 129_L | 189_I | 1.277 | 0.99 |
| 187_E | 190_R | 1.269 | 0.99 |
| 38_L | 77_Q | 1.269 | 0.99 |
| 69_L | 72_A | 1.267 | 0.99 |
| 5_A | 90_T | 1.247 | 0.99 |
| 188_D | 192_L | 1.229 | 0.98 |
| 154_F | 157_R | 1.208 | 0.98 |
| 152_G | 156_E | 1.206 | 0.98 |
| 53_S | 57_K | 1.188 | 0.98 |
| 156_E | 160_R | 1.178 | 0.98 |
| 22_R | 25_V | 1.175 | 0.98 |
| 11_G | 15_A | 1.166 | 0.97 |
| 23_K | 27_A | 1.166 | 0.97 |
| 76_E | 80_L | 1.161 | 0.97 |
| 129_L | 192_L | 1.160 | 0.97 |
| 132_Q | 177_D | 1.157 | 0.97 |
| 28_L | 194_E | 1.155 | 0.97 |
| 73_N | 77_Q | 1.151 | 0.97 |
| 12_V | 138_A | 1.151 | 0.97 |
| 6_L | 85_L | 1.144 | 0.97 |
| 136_A | 140_K | 1.139 | 0.97 |
| 9_L | 24_L | 1.137 | 0.97 |
| 133_L | 137_D | 1.129 | 0.97 |
| 41_P | 55_L | 1.128 | 0.97 |
| 128_V | 173_W | 1.127 | 0.97 |
| 36_E | 39_R | 1.118 | 0.96 |
| 180_K | 185_V | 1.109 | 0.96 |
| 178_A | 185_V | 1.108 | 0.96 |
| 23_K | 182_I | 1.097 | 0.96 |
| 51_L | 54_Y | 1.095 | 0.96 |
| 132_Q | 159_L | 1.090 | 0.96 |
| 13_D | 138_A | 1.084 | 0.96 |
| 186_H | 189_I | 1.078 | 0.95 |
| 21_S | 37_L | 1.076 | 0.95 |
| 130_F | 173_W | 1.075 | 0.95 |
| 98_F | 172_N | 1.064 | 0.95 |
| 132_Q | 163_H | 1.061 | 0.95 |
| 61_V | 65_S | 1.051 | 0.94 |
| 18_S | 94_D | 1.048 | 0.94 |
| 66_V | 69_L | 1.045 | 0.94 |
| 11_G | 18_S | 1.042 | 0.94 |
| 139_A | 155_Q | 1.031 | 0.94 |
| 53_S | 56_Q | 1.012 | 0.93 |
| 153_A | 156_E | 1.011 | 0.93 |
| 127_L | 192_L | 1.008 | 0.93 |
| 67_H | 71_S | 1.008 | 0.93 |
| 21_S | 25_V | 1.003 | 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 | |
| 1nn5A | 1 | 0.9714 | 100 | 0.236 | Contact Map |
| 2v54A | 2 | 0.9714 | 100 | 0.303 | Contact Map |
| 2yogA | 2 | 0.9381 | 100 | 0.327 | Contact Map |
| 3tmkA | 8 | 0.9714 | 99.9 | 0.371 | Contact Map |
| 4edhA | 2 | 0.9571 | 99.9 | 0.381 | Contact Map |
| 4eaqA | 2 | 0.9286 | 99.9 | 0.389 | Contact Map |
| 2z0hA | 2 | 0.8667 | 99.9 | 0.393 | Contact Map |
| 4hlcA | 2 | 0.9143 | 99.9 | 0.396 | Contact Map |
| 3lv8A | 1 | 0.9143 | 99.9 | 0.396 | Contact Map |
| 4tmkA | 1 | 0.9333 | 99.9 | 0.4 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)