| hsf1_fung_trionly |
| ID: | 1495587303 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 64 (64) | ||
| Sequences: | 533 (330.2) | ||
| Seq/Len: | 8.328 | ||
| Nf(neff/√len): | 41.3 |
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: 8.328).
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 |
| 37_Q | 44_Q | 1.856 | 1.00 |
| 41_F | 45_H | 1.822 | 1.00 |
| 45_H | 48_H | 1.651 | 1.00 |
| 18_H | 27_L | 1.608 | 1.00 |
| 56_L | 62_V | 1.563 | 1.00 |
| 37_Q | 42_Q | 1.455 | 0.99 |
| 56_L | 60_A | 1.442 | 0.99 |
| 6_V | 13_I | 1.422 | 0.99 |
| 13_I | 20_I | 1.384 | 0.99 |
| 57_T | 61_T | 1.350 | 0.99 |
| 26_K | 30_D | 1.329 | 0.99 |
| 25_Q | 28_R | 1.321 | 0.99 |
| 16_Q | 21_S | 1.293 | 0.98 |
| 47_R | 52_I | 1.254 | 0.98 |
| 51_S | 60_A | 1.236 | 0.98 |
| 52_I | 59_L | 1.233 | 0.98 |
| 31_H | 42_Q | 1.228 | 0.97 |
| 55_I | 58_F | 1.223 | 0.97 |
| 10_L | 51_S | 1.179 | 0.97 |
| 20_I | 23_T | 1.176 | 0.96 |
| 9_E | 31_H | 1.161 | 0.96 |
| 29_R | 32_E | 1.159 | 0.96 |
| 54_A | 57_T | 1.145 | 0.96 |
| 2_Q | 6_V | 1.120 | 0.95 |
| 10_L | 26_K | 1.113 | 0.95 |
| 34_L | 64_N | 1.073 | 0.93 |
| 50_N | 54_A | 1.069 | 0.93 |
| 10_L | 34_L | 1.051 | 0.92 |
| 16_Q | 62_V | 1.042 | 0.92 |
| 38_A | 45_H | 1.031 | 0.91 |
| 31_H | 35_Y | 1.027 | 0.91 |
| 16_Q | 27_L | 1.018 | 0.91 |
| 41_F | 50_N | 1.010 | 0.90 |
| 44_Q | 51_S | 1.000 | 0.90 |
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 | |
| 3q4fC | 4 | 0.7344 | 10.9 | 0.856 | Contact Map |
| 4iffA | 4 | 0.6562 | 10.6 | 0.857 | Contact Map |
| 3vkgA | 2 | 1 | 10.2 | 0.858 | Contact Map |
| 4rh7A | 1 | 1 | 9.8 | 0.859 | Contact Map |
| 4cgkA | 2 | 1 | 9.4 | 0.86 | Contact Map |
| 4q4gX | 1 | 0 | 9.2 | 0.86 | Contact Map |
| 2jeeA | 4 | 0.9531 | 9.1 | 0.861 | Contact Map |
| 4uy3A | 1 | 1 | 8.6 | 0.863 | Contact Map |
| 1x79B | 2 | 0.3594 | 8.4 | 0.863 | Contact Map |
| 3tnuA | 1 | 0.8438 | 8 | 0.865 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)