| ICL1 |
| ID: | 1469033641 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 60 (60) | ||
| Sequences: | 2684 (1797.4) | ||
| Seq/Len: | 44.733 | ||
| Nf(neff/√len): | 232.0 |
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: 44.733).
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 |
| 34_I | 42_L | 1.892 | 1.00 |
| 48_N | 52_E | 1.870 | 1.00 |
| 6_H | 10_Q | 1.803 | 1.00 |
| 8_G | 51_D | 1.691 | 1.00 |
| 11_M | 54_L | 1.682 | 1.00 |
| 23_T | 43_L | 1.589 | 1.00 |
| 27_S | 30_V | 1.578 | 1.00 |
| 15_M | 47_L | 1.392 | 0.99 |
| 16_F | 43_L | 1.383 | 0.99 |
| 22_K | 25_K | 1.371 | 0.99 |
| 53_G | 57_A | 1.347 | 0.99 |
| 35_S | 38_Q | 1.335 | 0.99 |
| 31_L | 34_I | 1.314 | 0.99 |
| 27_S | 31_L | 1.304 | 0.99 |
| 41_S | 46_N | 1.283 | 0.99 |
| 54_L | 58_H | 1.278 | 0.99 |
| 41_S | 45_N | 1.226 | 0.98 |
| 1_I | 5_H | 1.224 | 0.98 |
| 1_I | 56_L | 1.189 | 0.98 |
| 10_Q | 14_A | 1.188 | 0.98 |
| 19_I | 43_L | 1.184 | 0.98 |
| 4_L | 55_A | 1.167 | 0.97 |
| 28_S | 40_V | 1.160 | 0.97 |
| 15_M | 18_L | 1.143 | 0.97 |
| 12_R | 16_F | 1.132 | 0.97 |
| 26_L | 31_L | 1.126 | 0.97 |
| 3_G | 6_H | 1.116 | 0.96 |
| 49_K | 52_E | 1.098 | 0.96 |
| 45_N | 49_K | 1.092 | 0.96 |
| 16_F | 47_L | 1.073 | 0.95 |
| 31_L | 38_Q | 1.066 | 0.95 |
| 34_I | 38_Q | 1.055 | 0.95 |
| 20_Y | 24_L | 1.051 | 0.94 |
| 17_S | 21_K | 1.038 | 0.94 |
| 48_N | 51_D | 1.023 | 0.93 |
| 37_G | 41_S | 1.002 | 0.92 |
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 | |
| 3zdqA | 1 | 1 | 92.3 | 0.496 | Contact Map |
| 4q4hA | 1 | 1 | 92.2 | 0.498 | Contact Map |
| 4mrsA | 2 | 1 | 92.1 | 0.5 | Contact Map |
| 4a82A | 4 | 1 | 91.3 | 0.51 | Contact Map |
| 4ry2A | 2 | 0 | 91.2 | 0.511 | Contact Map |
| 4q4hB | 1 | 1 | 91.1 | 0.513 | Contact Map |
| 4q9hA | 1 | 1 | 90.7 | 0.517 | Contact Map |
| 3wmgA | 1 | 1 | 90.4 | 0.52 | Contact Map |
| 4f4cA | 1 | 1 | 90.3 | 0.522 | Contact Map |
| 3b5xA | 2 | 1 | 87 | 0.548 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)