| Evalue 100000 |
| ID: | 1494444064 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 78 (78) | ||
| Sequences: | 572 (530.1) | ||
| Seq/Len: | 7.333 | ||
| Nf(neff/√len): | 60.0 |
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: 7.333).
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 |
| 67_N | 71_F | 1.603 | 1.00 |
| 67_N | 72_A | 1.488 | 0.99 |
| 57_F | 60_N | 1.387 | 0.99 |
| 10_Y | 15_S | 1.376 | 0.99 |
| 68_K | 71_F | 1.368 | 0.99 |
| 59_S | 65_W | 1.364 | 0.99 |
| 13_R | 18_S | 1.361 | 0.99 |
| 69_S | 72_A | 1.359 | 0.99 |
| 4_N | 8_A | 1.335 | 0.98 |
| 59_S | 62_A | 1.321 | 0.98 |
| 34_V | 38_K | 1.317 | 0.98 |
| 70_D | 73_C | 1.313 | 0.98 |
| 64_A | 67_N | 1.293 | 0.98 |
| 73_C | 76_A | 1.245 | 0.97 |
| 52_M | 55_M | 1.245 | 0.97 |
| 2_I | 7_P | 1.243 | 0.97 |
| 48_C | 52_M | 1.211 | 0.96 |
| 71_F | 75_N | 1.194 | 0.96 |
| 58_K | 61_S | 1.194 | 0.96 |
| 49_V | 52_M | 1.189 | 0.96 |
| 65_W | 68_K | 1.171 | 0.95 |
| 71_F | 74_A | 1.170 | 0.95 |
| 72_A | 76_A | 1.158 | 0.95 |
| 47_K | 50_L | 1.156 | 0.95 |
| 8_A | 11_Q | 1.153 | 0.95 |
| 68_K | 75_N | 1.138 | 0.94 |
| 66_S | 71_F | 1.119 | 0.94 |
| 70_D | 74_A | 1.102 | 0.93 |
| 62_A | 66_S | 1.100 | 0.93 |
| 63_V | 66_S | 1.097 | 0.93 |
| 9_V | 21_S | 1.091 | 0.93 |
| 63_V | 67_N | 1.086 | 0.92 |
| 29_D | 32_T | 1.080 | 0.92 |
| 4_N | 7_P | 1.079 | 0.92 |
| 50_L | 54_S | 1.069 | 0.92 |
| 27_D | 30_S | 1.060 | 0.91 |
| 58_K | 64_A | 1.058 | 0.91 |
| 69_S | 74_A | 1.045 | 0.90 |
| 46_D | 49_V | 1.042 | 0.90 |
| 51_D | 56_D | 1.042 | 0.90 |
| 66_S | 69_S | 1.039 | 0.90 |
| 8_A | 12_L | 1.037 | 0.90 |
| 51_D | 54_S | 1.028 | 0.89 |
| 11_Q | 21_S | 1.010 | 0.88 |
| 20_K | 23_C | 1.007 | 0.88 |
| 65_W | 70_D | 1.005 | 0.88 |
| 64_A | 68_K | 1.000 | 0.88 |
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 | |
| 4ei6A | 2 | 1 | 3.2 | 0.852 | Contact Map |
| 4wnqA | 2 | 1 | 2.6 | 0.858 | Contact Map |
| 1xi4A | 9 | 0.9487 | 1.3 | 0.88 | Contact Map |
| 2ghvE | 2 | 0.4359 | 1.3 | 0.881 | Contact Map |
| 2l9dA | 1 | 0.9744 | 1.2 | 0.884 | Contact Map |
| 1bpoA | 3 | 0.9487 | 1.1 | 0.885 | Contact Map |
| 4g9iA | 6 | 0.9487 | 0.9 | 0.89 | Contact Map |
| 3c6lA | 2 | 0.9872 | 0.9 | 0.893 | Contact Map |
| 2zuyA | 1 | 0.359 | 0.8 | 0.895 | Contact Map |
| 4qpiA | 1 | 0.7436 | 0.8 | 0.896 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)