| lipase-chaperone |
| ID: | 1435167396 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 191 (191) | ||
| Sequences: | 277 (209.1) | ||
| Seq/Len: | 1.450 | ||
| Nf(neff/√len): | 15.1 |
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: 1.450).
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 |
| 128_R | 144_D | 3.644 | 1.00 |
| 1_L | 43_F | 2.561 | 1.00 |
| 157_Y | 182_R | 2.413 | 1.00 |
| 120_S | 123_E | 2.350 | 0.99 |
| 64_D | 67_K | 2.339 | 0.99 |
| 75_S | 78_E | 2.299 | 0.99 |
| 39_R | 56_D | 2.147 | 0.99 |
| 137_T | 141_E | 1.904 | 0.97 |
| 160_Q | 177_A | 1.774 | 0.95 |
| 43_F | 47_E | 1.733 | 0.94 |
| 164_V | 174_K | 1.720 | 0.94 |
| 136_A | 143_L | 1.683 | 0.93 |
| 68_I | 79_K | 1.596 | 0.90 |
| 44_S | 48_I | 1.583 | 0.89 |
| 112_K | 116_A | 1.555 | 0.88 |
| 66_M | 169_M | 1.543 | 0.88 |
| 47_E | 51_L | 1.538 | 0.87 |
| 143_L | 147_R | 1.533 | 0.87 |
| 44_S | 47_E | 1.498 | 0.85 |
| 43_F | 52_F | 1.491 | 0.85 |
| 128_R | 141_E | 1.479 | 0.84 |
| 87_F | 98_L | 1.405 | 0.80 |
| 43_F | 51_L | 1.381 | 0.78 |
| 4_R | 47_E | 1.380 | 0.78 |
| 32_F | 59_Q | 1.378 | 0.78 |
| 169_M | 173_A | 1.371 | 0.78 |
| 12_L | 79_K | 1.360 | 0.77 |
| 129_T | 137_T | 1.352 | 0.76 |
| 178_I | 182_R | 1.317 | 0.74 |
| 138_Q | 176_Q | 1.297 | 0.72 |
| 57_I | 81_K | 1.293 | 0.72 |
| 125_R | 141_E | 1.285 | 0.71 |
| 133_G | 136_A | 1.285 | 0.71 |
| 160_Q | 163_E | 1.275 | 0.70 |
| 43_F | 169_M | 1.267 | 0.69 |
| 133_G | 137_T | 1.255 | 0.68 |
| 15_I | 38_I | 1.247 | 0.68 |
| 29_Q | 60_N | 1.215 | 0.65 |
| 157_Y | 186_F | 1.215 | 0.65 |
| 9_R | 16_Q | 1.202 | 0.63 |
| 160_Q | 185_Q | 1.200 | 0.63 |
| 11_Q | 38_I | 1.196 | 0.63 |
| 170_S | 181_L | 1.195 | 0.63 |
| 136_A | 139_R | 1.189 | 0.62 |
| 11_Q | 42_F | 1.183 | 0.62 |
| 40_K | 56_D | 1.181 | 0.61 |
| 119_G | 124_L | 1.179 | 0.61 |
| 107_L | 127_M | 1.172 | 0.61 |
| 71_D | 82_K | 1.171 | 0.60 |
| 2_W | 39_R | 1.169 | 0.60 |
| 132_V | 178_I | 1.165 | 0.60 |
| 132_V | 140_L | 1.162 | 0.60 |
| 74_L | 79_K | 1.150 | 0.58 |
| 95_Q | 100_E | 1.149 | 0.58 |
| 42_F | 165_L | 1.146 | 0.58 |
| 146_Q | 151_Q | 1.136 | 0.57 |
| 161_R | 182_R | 1.132 | 0.57 |
| 150_W | 153_R | 1.131 | 0.56 |
| 9_R | 12_L | 1.129 | 0.56 |
| 161_R | 186_F | 1.122 | 0.56 |
| 29_Q | 67_K | 1.121 | 0.55 |
| 128_R | 136_A | 1.112 | 0.55 |
| 92_E | 138_Q | 1.112 | 0.55 |
| 43_F | 48_I | 1.108 | 0.54 |
| 4_R | 106_D | 1.093 | 0.53 |
| 33_S | 49_E | 1.093 | 0.53 |
| 138_Q | 142_T | 1.084 | 0.52 |
| 85_E | 88_E | 1.082 | 0.52 |
| 115_K | 121_A | 1.073 | 0.51 |
| 126_Q | 132_V | 1.068 | 0.50 |
| 43_F | 87_F | 1.063 | 0.50 |
| 39_R | 122_E | 1.054 | 0.49 |
| 124_L | 127_M | 1.051 | 0.48 |
| 43_F | 62_T | 1.049 | 0.48 |
| 161_R | 181_L | 1.047 | 0.48 |
| 136_A | 144_D | 1.040 | 0.47 |
| 39_R | 59_Q | 1.038 | 0.47 |
| 65_R | 150_W | 1.028 | 0.46 |
| 49_E | 149_A | 1.028 | 0.46 |
| 38_I | 175_K | 1.017 | 0.45 |
| 8_Y | 52_F | 1.015 | 0.45 |
| 181_L | 186_F | 1.012 | 0.44 |
| 1_L | 51_L | 1.011 | 0.44 |
| 28_F | 66_M | 1.007 | 0.44 |
| 129_T | 134_A | 1.006 | 0.44 |
| 71_D | 176_Q | 1.005 | 0.44 |
| 54_T | 57_I | 1.004 | 0.44 |
| 85_E | 176_Q | 1.003 | 0.43 |
| 59_Q | 150_W | 1.003 | 0.43 |
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 | |
| 2es4D | 2 | 0.9948 | 100 | 0.069 | Contact Map |
| 2marA | 1 | 0.4398 | 60.9 | 0.912 | Contact Map |
| 2fh0A | 1 | 0.3613 | 15.5 | 0.936 | Contact Map |
| 1t3wA | 2 | 0.3979 | 7 | 0.945 | Contact Map |
| 2jxnA | 1 | 0.5497 | 6.2 | 0.947 | Contact Map |
| 4im9A | 3 | 0.4241 | 4.9 | 0.949 | Contact Map |
| 2cruA | 1 | 0.5288 | 4.7 | 0.95 | Contact Map |
| 1eijA | 1 | 0.3613 | 4.2 | 0.951 | Contact Map |
| 2ynqA | 4 | 0.5497 | 4 | 0.951 | Contact Map |
| 3qneA | 1 | 0.4398 | 3.7 | 0.952 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)