| enhd |
| ID: | 1405071918 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 54 (54) | ||
| Sequences: | 2453 (1322.1) | ||
| Seq/Len: | 45.426 | ||
| Nf(neff/√len): | 179.9 |
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: 45.426).
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 |
| 29_R | 40_E | 2.184 | 1.00 |
| 13_R | 35_E | 1.890 | 1.00 |
| 6_F | 23_Y | 1.886 | 1.00 |
| 17_E | 28_R | 1.885 | 1.00 |
| 46_W | 49_N | 1.854 | 1.00 |
| 7_S | 10_Q | 1.819 | 1.00 |
| 15_K | 50_K | 1.712 | 1.00 |
| 46_W | 51_R | 1.573 | 1.00 |
| 26_E | 52_A | 1.560 | 1.00 |
| 16_R | 19_N | 1.557 | 1.00 |
| 13_R | 16_R | 1.525 | 1.00 |
| 1_R | 4_T | 1.496 | 1.00 |
| 21_N | 28_R | 1.490 | 1.00 |
| 31_Q | 35_E | 1.406 | 0.99 |
| 38_L | 42_Q | 1.373 | 0.99 |
| 2_P | 8_S | 1.344 | 0.99 |
| 47_F | 51_R | 1.315 | 0.99 |
| 25_T | 28_R | 1.279 | 0.99 |
| 32_L | 43_I | 1.180 | 0.98 |
| 9_E | 34_S | 1.177 | 0.98 |
| 39_N | 42_Q | 1.175 | 0.98 |
| 49_N | 53_K | 1.152 | 0.97 |
| 12_A | 16_R | 1.148 | 0.97 |
| 13_R | 17_E | 1.137 | 0.97 |
| 9_E | 13_R | 1.120 | 0.96 |
| 17_E | 21_N | 1.108 | 0.96 |
| 26_E | 30_Q | 1.103 | 0.96 |
| 6_F | 38_L | 1.099 | 0.96 |
| 3_R | 14_L | 1.091 | 0.96 |
| 16_R | 20_E | 1.077 | 0.95 |
| 45_I | 49_N | 1.042 | 0.94 |
| 18_F | 33_S | 1.014 | 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 | |
| 1mh3A | 1 | 1 | 99.3 | -0.069 | Contact Map |
| 2xsdC | 1 | 0.9074 | 99.2 | -0.015 | Contact Map |
| 4egcA | 1 | 0.8519 | 99.2 | -0.013 | Contact Map |
| 2h8rA | 2 | 1 | 99.2 | -0.01 | Contact Map |
| 3d1nI | 8 | 1 | 99.2 | -0.008 | Contact Map |
| 1au7A | 2 | 1 | 99.2 | -0.007 | Contact Map |
| 1e3oC | 1 | 0.9815 | 99.2 | -0.006 | Contact Map |
| 3l1pA | 2 | 1 | 99.2 | -0.005 | Contact Map |
| 2d5vA | 2 | 0.9815 | 99.2 | 0.011 | Contact Map |
| 2ecbA | 1 | 1 | 99.2 | 0.014 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)