| Cus-edited |
| ID: | 1419265114 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 106 (98) | ||
| Sequences: | 3291 (2745.3) | ||
| Seq/Len: | 33.582 | ||
| Nf(neff/√len): | 277.3 |
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: 33.582).
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 |
| 13_A | 103_H | 2.659 | 1.00 |
| 98_V | 102_V | 2.165 | 1.00 |
| 99_L | 103_H | 2.120 | 1.00 |
| 39_V | 79_L | 2.091 | 1.00 |
| 95_V | 99_L | 1.978 | 1.00 |
| 36_I | 80_M | 1.915 | 1.00 |
| 24_T | 94_I | 1.901 | 1.00 |
| 77_N | 81_N | 1.870 | 1.00 |
| 33_W | 37_H | 1.834 | 1.00 |
| 48_I | 51_L | 1.782 | 1.00 |
| 47_D | 72_H | 1.764 | 1.00 |
| 11_S | 14_T | 1.698 | 1.00 |
| 16_L | 20_I | 1.640 | 1.00 |
| 17_T | 21_S | 1.631 | 1.00 |
| 20_I | 98_V | 1.588 | 1.00 |
| 47_D | 51_L | 1.534 | 1.00 |
| 39_V | 43_F | 1.462 | 1.00 |
| 31_F | 90_I | 1.457 | 1.00 |
| 43_F | 75_Y | 1.332 | 0.99 |
| 102_V | 105_G | 1.319 | 0.99 |
| 100_L | 104_K | 1.301 | 0.99 |
| 42_H | 46_Q | 1.299 | 0.99 |
| 81_N | 85_M | 1.271 | 0.99 |
| 67_L | 72_H | 1.269 | 0.99 |
| 21_S | 95_V | 1.268 | 0.99 |
| 72_H | 75_Y | 1.249 | 0.99 |
| 17_T | 102_V | 1.247 | 0.99 |
| 81_N | 84_I | 1.232 | 0.98 |
| 50_D | 67_L | 1.222 | 0.98 |
| 48_I | 66_A | 1.203 | 0.98 |
| 102_V | 106_H | 1.197 | 0.98 |
| 23_A | 101_A | 1.185 | 0.98 |
| 49_N | 52_K | 1.154 | 0.97 |
| 25_I | 91_S | 1.153 | 0.97 |
| 33_W | 36_I | 1.139 | 0.97 |
| 40_K | 44_A | 1.137 | 0.97 |
| 13_A | 17_T | 1.128 | 0.97 |
| 32_A | 87_A | 1.119 | 0.96 |
| 34_I | 80_M | 1.083 | 0.96 |
| 43_F | 46_Q | 1.082 | 0.96 |
| 70_D | 74_H | 1.073 | 0.95 |
| 28_F | 32_A | 1.072 | 0.95 |
| 80_M | 83_L | 1.058 | 0.95 |
| 98_V | 101_A | 1.041 | 0.94 |
| 55_S | 65_I | 1.036 | 0.94 |
| 84_I | 88_S | 1.019 | 0.93 |
| 24_T | 31_F | 1.009 | 0.93 |
| 41_V | 45_E | 1.009 | 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 | |
| 2kseA | 1 | 0.717 | 96.8 | 0.538 | Contact Map |
| 2f95B | 1 | 0.5 | 44.7 | 0.769 | Contact Map |
| 4i5sA | 2 | 0.1038 | 22.8 | 0.802 | Contact Map |
| 4gycB | 1 | 0.5755 | 19.2 | 0.809 | Contact Map |
| 3e4oA | 2 | 0.5283 | 16.7 | 0.814 | Contact Map |
| 3effK | 4 | 0.8868 | 4.3 | 0.858 | Contact Map |
| 2onkC | 4 | 0.7547 | 3.5 | 0.864 | Contact Map |
| 3d31C | 2 | 0.7264 | 3.4 | 0.864 | Contact Map |
| 4o9pC | 2 | 0.8208 | 3.2 | 0.867 | Contact Map |
| 4lp8A | 1 | 0.9811 | 2.7 | 0.872 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)