| T_EMQ_end |
| ID: | 1498503571 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 162 (148) | ||
| Sequences: | 13934 (11554.7) | ||
| Seq/Len: | 94.149 | ||
| Nf(neff/√len): | 949.8 |
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: 94.149).
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 |
| 103_G | 143_G | 2.795 | 1.00 |
| 93_E | 122_A | 2.720 | 1.00 |
| 132_P | 135_V | 2.582 | 1.00 |
| 105_H | 140_T | 2.435 | 1.00 |
| 135_V | 148_W | 2.359 | 1.00 |
| 106_F | 111_G | 2.307 | 1.00 |
| 86_L | 126_K | 2.015 | 1.00 |
| 139_H | 148_W | 2.005 | 1.00 |
| 77_R | 103_G | 1.994 | 1.00 |
| 141_R | 144_E | 1.961 | 1.00 |
| 91_W | 142_L | 1.952 | 1.00 |
| 12_F | 46_P | 1.948 | 1.00 |
| 83_T | 150_D | 1.926 | 1.00 |
| 84_E | 102_C | 1.911 | 1.00 |
| 59_D | 62_Y | 1.879 | 1.00 |
| 112_H | 115_K | 1.874 | 1.00 |
| 88_A | 142_L | 1.842 | 1.00 |
| 31_C | 35_R | 1.830 | 1.00 |
| 101_S | 104_D | 1.800 | 1.00 |
| 76_N | 99_D | 1.761 | 1.00 |
| 83_T | 86_L | 1.759 | 1.00 |
| 37_S | 40_Y | 1.719 | 1.00 |
| 105_H | 108_L | 1.712 | 1.00 |
| 124_R | 130_D | 1.709 | 1.00 |
| 80_H | 102_C | 1.698 | 1.00 |
| 90_I | 119_M | 1.685 | 1.00 |
| 91_W | 111_G | 1.683 | 1.00 |
| 81_T | 150_D | 1.664 | 1.00 |
| 116_A | 120_L | 1.624 | 1.00 |
| 122_A | 126_K | 1.604 | 1.00 |
| 77_R | 143_G | 1.569 | 1.00 |
| 81_T | 102_C | 1.561 | 1.00 |
| 47_E | 50_W | 1.542 | 1.00 |
| 86_L | 89_H | 1.528 | 1.00 |
| 29_H | 44_L | 1.516 | 1.00 |
| 102_C | 142_L | 1.510 | 1.00 |
| 82_E | 85_K | 1.504 | 1.00 |
| 12_F | 44_L | 1.497 | 1.00 |
| 139_H | 144_E | 1.494 | 1.00 |
| 13_K | 50_W | 1.471 | 1.00 |
| 81_T | 84_E | 1.460 | 1.00 |
| 43_H | 46_P | 1.450 | 1.00 |
| 91_W | 145_L | 1.438 | 1.00 |
| 119_M | 136_L | 1.430 | 1.00 |
| 81_T | 85_K | 1.399 | 0.99 |
| 87_L | 146_A | 1.393 | 0.99 |
| 88_A | 92_S | 1.385 | 0.99 |
| 102_C | 143_G | 1.356 | 0.99 |
| 31_C | 34_S | 1.349 | 0.99 |
| 77_R | 102_C | 1.341 | 0.99 |
| 134_A | 138_E | 1.329 | 0.99 |
| 89_H | 126_K | 1.323 | 0.99 |
| 94_L | 119_M | 1.318 | 0.99 |
| 86_L | 127_T | 1.276 | 0.99 |
| 116_A | 136_L | 1.274 | 0.99 |
| 87_L | 142_L | 1.260 | 0.99 |
| 92_S | 99_D | 1.244 | 0.98 |
| 107_F | 137_F | 1.241 | 0.98 |
| 80_H | 84_E | 1.230 | 0.98 |
| 120_L | 124_R | 1.228 | 0.98 |
| 29_H | 33_Q | 1.217 | 0.98 |
| 90_I | 123_V | 1.206 | 0.98 |
| 87_L | 123_V | 1.200 | 0.98 |
| 115_K | 118_Q | 1.148 | 0.97 |
| 88_A | 100_V | 1.147 | 0.97 |
| 76_N | 101_S | 1.135 | 0.97 |
| 118_Q | 122_A | 1.126 | 0.97 |
| 85_K | 89_H | 1.126 | 0.97 |
| 11_F | 63_F | 1.122 | 0.97 |
| 94_L | 115_K | 1.122 | 0.97 |
| 10_V | 44_L | 1.117 | 0.96 |
| 90_I | 122_A | 1.111 | 0.96 |
| 104_D | 109_L | 1.096 | 0.96 |
| 120_L | 136_L | 1.096 | 0.96 |
| 129_F | 149_I | 1.096 | 0.96 |
| 79_P | 102_C | 1.091 | 0.96 |
| 88_A | 102_C | 1.090 | 0.96 |
| 50_W | 58_P | 1.090 | 0.96 |
| 27_S | 31_C | 1.088 | 0.96 |
| 135_V | 138_E | 1.087 | 0.96 |
| 29_H | 108_L | 1.073 | 0.95 |
| 84_E | 146_A | 1.053 | 0.95 |
| 116_A | 133_L | 1.033 | 0.94 |
| 14_T | 46_P | 1.033 | 0.94 |
| 91_W | 119_M | 1.017 | 0.93 |
| 117_T | 121_S | 1.010 | 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 | |
| 2vsqA | 1 | 0.963 | 99.9 | 0.131 | Contact Map |
| 4dg8A | 1 | 0.3519 | 99.9 | 0.202 | Contact Map |
| 4r0mB | 2 | 0.9136 | 99.9 | 0.21 | Contact Map |
| 4iz6A | 2 | 0.9012 | 99.9 | 0.215 | Contact Map |
| 4oqjA | 1 | 0.2778 | 99.8 | 0.339 | Contact Map |
| 4f6lB | 2 | 0.037 | 99.6 | 0.445 | Contact Map |
| 2jgpA | 1 | 0.5556 | 99.5 | 0.457 | Contact Map |
| 2cq8A | 1 | 0.6481 | 99.5 | 0.478 | Contact Map |
| 3tejA | 2 | 0.537 | 99.3 | 0.514 | Contact Map |
| 2l22A | 1 | 0.5247 | 99.3 | 0.527 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)