| 1eso |
| ID: | 1452699575 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 154 (147) | ||
| Sequences: | 2228 (1394.9) | ||
| Seq/Len: | 15.156 | ||
| Nf(neff/√len): | 115.0 |
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: 15.156).
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 |
| 35_P | 107_D | 3.050 | 1.00 |
| 36_D | 106_T | 2.638 | 1.00 |
| 24_I | 125_L | 2.496 | 1.00 |
| 22_V | 35_P | 2.495 | 1.00 |
| 129_V | 146_E | 2.488 | 1.00 |
| 44_E | 98_V | 2.103 | 1.00 |
| 70_A | 124_A | 2.064 | 1.00 |
| 100_N | 104_K | 2.031 | 1.00 |
| 81_K | 139_K | 1.845 | 1.00 |
| 45_H | 99_V | 1.808 | 1.00 |
| 44_E | 131_G | 1.783 | 1.00 |
| 73_H | 90_H | 1.765 | 1.00 |
| 41_P | 148_Y | 1.758 | 1.00 |
| 56_Q | 69_S | 1.705 | 1.00 |
| 67_A | 150_C | 1.702 | 1.00 |
| 53_G | 152_V | 1.685 | 1.00 |
| 80_G | 88_A | 1.682 | 1.00 |
| 137_Q | 140_P | 1.668 | 1.00 |
| 32_E | 108_A | 1.652 | 1.00 |
| 24_I | 153_I | 1.646 | 1.00 |
| 48_H | 73_H | 1.629 | 1.00 |
| 70_A | 147_R | 1.558 | 1.00 |
| 32_E | 110_I | 1.552 | 1.00 |
| 55_C | 124_A | 1.549 | 1.00 |
| 24_I | 33_F | 1.536 | 1.00 |
| 94_L | 111_A | 1.536 | 1.00 |
| 120_I | 123_K | 1.479 | 1.00 |
| 128_H | 147_R | 1.468 | 1.00 |
| 99_V | 105_A | 1.450 | 1.00 |
| 73_H | 93_D | 1.442 | 1.00 |
| 41_P | 45_H | 1.425 | 1.00 |
| 7_M | 24_I | 1.420 | 1.00 |
| 31_L | 113_R | 1.412 | 1.00 |
| 24_I | 120_I | 1.409 | 1.00 |
| 96_A | 134_M | 1.405 | 0.99 |
| 74_L | 91_L | 1.393 | 0.99 |
| 141_L | 144_G | 1.385 | 0.99 |
| 81_K | 88_A | 1.356 | 0.99 |
| 54_S | 69_S | 1.346 | 0.99 |
| 25_T | 34_S | 1.335 | 0.99 |
| 90_H | 132_D | 1.333 | 0.99 |
| 35_P | 108_A | 1.330 | 0.99 |
| 22_V | 107_D | 1.329 | 0.99 |
| 42_P | 103_G | 1.325 | 0.99 |
| 40_L | 105_A | 1.318 | 0.99 |
| 132_D | 142_G | 1.315 | 0.99 |
| 49_I | 153_I | 1.280 | 0.99 |
| 77_Q | 91_L | 1.276 | 0.99 |
| 22_V | 125_L | 1.267 | 0.99 |
| 119_E | 123_K | 1.267 | 0.99 |
| 48_H | 128_H | 1.228 | 0.98 |
| 142_G | 145_G | 1.223 | 0.98 |
| 76_P | 91_L | 1.194 | 0.98 |
| 9_L | 149_A | 1.189 | 0.98 |
| 34_S | 108_A | 1.184 | 0.98 |
| 57_P | 66_A | 1.179 | 0.98 |
| 89_G | 111_A | 1.152 | 0.97 |
| 140_P | 143_G | 1.145 | 0.97 |
| 26_E | 31_L | 1.144 | 0.97 |
| 70_A | 126_M | 1.139 | 0.97 |
| 137_Q | 143_G | 1.126 | 0.97 |
| 54_S | 66_A | 1.104 | 0.96 |
| 53_G | 122_D | 1.092 | 0.96 |
| 50_H | 128_H | 1.091 | 0.96 |
| 50_H | 73_H | 1.089 | 0.96 |
| 73_H | 147_R | 1.089 | 0.96 |
| 20_G | 26_E | 1.079 | 0.95 |
| 51_A | 72_G | 1.066 | 0.95 |
| 46_G | 144_G | 1.062 | 0.95 |
| 135_S | 140_P | 1.051 | 0.94 |
| 5_V | 8_N | 1.050 | 0.94 |
| 55_C | 150_C | 1.043 | 0.94 |
| 133_N | 142_G | 1.042 | 0.94 |
| 38_K | 104_K | 1.031 | 0.94 |
| 33_F | 109_V | 1.019 | 0.93 |
| 36_D | 104_K | 1.012 | 0.93 |
| 130_G | 148_Y | 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 | |
| 1esoA | 1 | 1 | 100 | 0.049 | Contact Map |
| 4l05A | 1 | 1 | 100 | 0.063 | Contact Map |
| 1eqwA | 4 | 1 | 100 | 0.071 | Contact Map |
| 1z9nA | 4 | 1 | 100 | 0.073 | Contact Map |
| 2aqpA | 2 | 1 | 100 | 0.075 | Contact Map |
| 1oalA | 1 | 0.974 | 100 | 0.095 | Contact Map |
| 3pu7A | 2 | 0.9221 | 100 | 0.116 | Contact Map |
| 3f7lA | 1 | 0.9156 | 100 | 0.123 | Contact Map |
| 3kbeA | 1 | 0.8442 | 100 | 0.123 | Contact Map |
| 4a7uA | 2 | 0.9156 | 100 | 0.124 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)