| metarhizium 50 |
| ID: | 1490000979 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 43 (38) | ||
| Sequences: | 47 (44) | ||
| Seq/Len: | 1.237 | ||
| Nf(neff/√len): | 7.1 |
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: 1.237).
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 |
| 21_Q | 30_Q | 2.027 | 0.97 |
| 33_G | 38_G | 2.019 | 0.97 |
| 7_N | 31_F | 1.925 | 0.96 |
| 12_D | 25_K | 1.543 | 0.84 |
| 35_T | 38_G | 1.456 | 0.79 |
| 36_F | 42_F | 1.456 | 0.79 |
| 14_L | 21_Q | 1.440 | 0.78 |
| 19_G | 28_G | 1.433 | 0.78 |
| 17_P | 42_F | 1.409 | 0.76 |
| 29_N | 33_G | 1.390 | 0.75 |
| 20_T | 34_A | 1.340 | 0.71 |
| 20_T | 37_S | 1.291 | 0.67 |
| 23_I | 30_Q | 1.288 | 0.66 |
| 26_G | 36_F | 1.219 | 0.60 |
| 8_Y | 21_Q | 1.192 | 0.58 |
| 8_Y | 17_P | 1.179 | 0.56 |
| 33_G | 36_F | 1.151 | 0.54 |
| 14_L | 25_K | 1.151 | 0.54 |
| 4_S | 7_N | 1.143 | 0.53 |
| 29_N | 37_S | 1.087 | 0.47 |
| 24_S | 30_Q | 1.071 | 0.46 |
| 11_G | 14_L | 1.038 | 0.43 |
| 31_F | 36_F | 1.013 | 0.40 |
| 17_P | 32_A | 1.007 | 0.40 |
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 | |
| 2wq4A | 3 | 0.1628 | 0.8 | 0.884 | Contact Map |
| 4j94A | 1 | 1 | 0.7 | 0.888 | Contact Map |
| 3rlfF | 1 | 1 | 0.7 | 0.889 | Contact Map |
| 2b6nA | 1 | 1 | 0.7 | 0.891 | Contact Map |
| 4h6xA | 2 | 1 | 0.6 | 0.895 | Contact Map |
| 3fewX | 1 | 0 | 0.6 | 0.895 | Contact Map |
| 4c7lA | 2 | 0.6744 | 0.6 | 0.896 | Contact Map |
| 3cl5A | 1 | 0.6744 | 0.5 | 0.897 | Contact Map |
| 4mzdA | 1 | 0.9767 | 0.5 | 0.898 | Contact Map |
| 1sh7A | 2 | 1 | 0.5 | 0.9 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)