| SBA1 |
| ID: | 1455151992 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 134 (120) | ||
| Sequences: | 833 (587) | ||
| Seq/Len: | 6.942 | ||
| Nf(neff/√len): | 53.6 |
HHblits Results: (2015_06)
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: 6.942).
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 |
| 47_E | 70_L | 2.994 | 1.00 |
| 73_E | 96_K | 2.903 | 1.00 |
| 41_I | 79_T | 2.537 | 1.00 |
| 71_Y | 104_P | 2.305 | 1.00 |
| 42_K | 46_I | 2.122 | 1.00 |
| 70_L | 93_L | 2.014 | 1.00 |
| 34_C | 37_P | 1.969 | 1.00 |
| 38_E | 50_A | 1.934 | 1.00 |
| 75_I | 78_K | 1.865 | 1.00 |
| 13_Q | 104_P | 1.793 | 1.00 |
| 48_L | 67_H | 1.743 | 1.00 |
| 41_I | 74_I | 1.725 | 1.00 |
| 78_K | 94_Y | 1.712 | 1.00 |
| 43_P | 76_P | 1.684 | 1.00 |
| 34_C | 89_Y | 1.666 | 1.00 |
| 70_L | 91_L | 1.606 | 1.00 |
| 43_P | 73_E | 1.595 | 1.00 |
| 72_K | 97_D | 1.554 | 1.00 |
| 74_I | 93_L | 1.543 | 0.99 |
| 46_I | 67_H | 1.514 | 0.99 |
| 50_A | 65_Q | 1.471 | 0.99 |
| 29_V | 91_L | 1.377 | 0.99 |
| 41_I | 47_E | 1.374 | 0.98 |
| 69_D | 108_K | 1.372 | 0.98 |
| 84_A | 89_Y | 1.290 | 0.97 |
| 46_I | 69_D | 1.260 | 0.97 |
| 15_S | 129_Q | 1.216 | 0.96 |
| 44_S | 73_E | 1.208 | 0.96 |
| 124_V | 129_Q | 1.183 | 0.95 |
| 17_T | 92_K | 1.182 | 0.95 |
| 14_R | 102_Y | 1.166 | 0.95 |
| 102_Y | 126_A | 1.158 | 0.94 |
| 50_A | 63_H | 1.147 | 0.94 |
| 60_N | 133_E | 1.133 | 0.94 |
| 12_A | 26_L | 1.132 | 0.94 |
| 118_T | 123_W | 1.126 | 0.93 |
| 30_S | 49_K | 1.120 | 0.93 |
| 7_P | 123_W | 1.120 | 0.93 |
| 14_R | 125_D | 1.116 | 0.93 |
| 43_P | 70_L | 1.107 | 0.93 |
| 66_L | 89_Y | 1.095 | 0.92 |
| 8_Q | 30_S | 1.094 | 0.92 |
| 71_Y | 105_R | 1.092 | 0.92 |
| 10_A | 16_S | 1.091 | 0.92 |
| 107_T | 110_K | 1.087 | 0.92 |
| 6_N | 115_Y | 1.077 | 0.91 |
| 28_T | 88_H | 1.052 | 0.90 |
| 17_T | 94_Y | 1.044 | 0.89 |
| 9_V | 66_L | 1.044 | 0.89 |
| 112_K | 120_F | 1.042 | 0.89 |
| 103_W | 106_L | 1.041 | 0.89 |
| 25_V | 93_L | 1.038 | 0.89 |
| 59_E | 133_E | 1.038 | 0.89 |
| 5_I | 62_H | 1.014 | 0.87 |
| 7_P | 13_Q | 1.010 | 0.87 |
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 | |
| 2cg9X | 2 | 0.8433 | 100 | 0.169 | Contact Map |
| 2kmwA | 1 | 0.8657 | 99.9 | 0.267 | Contact Map |
| 1ejfA | 2 | 0.8134 | 99.9 | 0.285 | Contact Map |
| 1wfiA | 1 | 0.8284 | 99.8 | 0.456 | Contact Map |
| 2o30A | 2 | 0.6119 | 99.7 | 0.462 | Contact Map |
| 2rh0A | 4 | 0.806 | 99.7 | 0.486 | Contact Map |
| 1wh0A | 1 | 0.8284 | 99.7 | 0.506 | Contact Map |
| 1x5mA | 1 | 0.791 | 99.6 | 0.524 | Contact Map |
| 1wgvA | 1 | 0.791 | 99.6 | 0.527 | Contact Map |
| 1rl1A | 1 | 0.6716 | 99.6 | 0.53 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)