| ZNF_5ION |
| ID: | 1466083782 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 21 (21) | ||
| Sequences: | 28925 (19286.2) | ||
| Seq/Len: | 1377.381 | ||
| Nf(neff/√len): | 4208.6 |
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: 1377.381).
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 |
| 11_A | 15_A | 2.670 | 1.00 |
| 10_D | 13_S | 2.375 | 1.00 |
| 3_S | 18_V | 2.184 | 1.00 |
| 1_C | 4_C | 2.124 | 1.00 |
| 2_D | 18_V | 2.054 | 1.00 |
| 9_L | 13_S | 1.915 | 1.00 |
| 15_A | 18_V | 1.853 | 1.00 |
| 12_N | 16_Q | 1.788 | 1.00 |
| 13_S | 16_Q | 1.469 | 1.00 |
| 16_Q | 19_R | 1.435 | 1.00 |
| 17_H | 21_H | 1.408 | 1.00 |
| 2_D | 7_K | 1.386 | 0.99 |
| 4_C | 17_H | 1.025 | 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 | |
| 1ej6B | 2 | 1 | 59.3 | -0.472 | Contact Map |
| 1zr9A | 1 | 1 | 48.4 | -0.438 | Contact Map |
| 4ijdA | 2 | 1 | 41 | -0.413 | Contact Map |
| 2eluA | 1 | 1 | 38.8 | -0.404 | Contact Map |
| 2eppA | 1 | 1 | 30.6 | -0.371 | Contact Map |
| 3rayA | 1 | 0 | 29.5 | -0.366 | Contact Map |
| 3zmsC | 1 | 0 | 24.4 | -0.339 | Contact Map |
| 2lvuA | 1 | 1 | 24.2 | -0.339 | Contact Map |
| 2ej4A | 1 | 1 | 23.8 | -0.336 | Contact Map |
| 3w5kB | 1 | 1 | 23.6 | -0.336 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)