| SWISSPROTP20724 |
| ID: | 1516225168 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 84 (72) | ||
| Sequences: | 139 (118.3) | ||
| Seq/Len: | 1.931 | ||
| Nf(neff/√len): | 13.9 |
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: 1.931).
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 |
| 8_K | 78_D | 4.742 | 1.00 |
| 12_G | 74_Y | 2.142 | 0.99 |
| 9_Y | 58_L | 2.038 | 0.99 |
| 42_I | 59_D | 1.568 | 0.93 |
| 7_E | 64_D | 1.565 | 0.93 |
| 48_F | 71_A | 1.427 | 0.87 |
| 42_I | 62_D | 1.391 | 0.86 |
| 10_L | 53_V | 1.385 | 0.85 |
| 21_Q | 24_D | 1.383 | 0.85 |
| 34_S | 42_I | 1.358 | 0.84 |
| 59_D | 62_D | 1.316 | 0.81 |
| 7_E | 67_E | 1.281 | 0.78 |
| 58_L | 70_P | 1.266 | 0.77 |
| 44_L | 82_T | 1.259 | 0.77 |
| 45_L | 82_T | 1.248 | 0.76 |
| 76_E | 81_V | 1.192 | 0.71 |
| 55_S | 78_D | 1.186 | 0.71 |
| 7_E | 77_E | 1.142 | 0.66 |
| 35_S | 80_E | 1.141 | 0.66 |
| 7_E | 61_E | 1.133 | 0.65 |
| 10_L | 81_V | 1.128 | 0.65 |
| 24_D | 75_I | 1.121 | 0.64 |
| 46_H | 79_A | 1.115 | 0.64 |
| 10_L | 57_E | 1.102 | 0.62 |
| 23_V | 31_Y | 1.090 | 0.61 |
| 12_G | 52_P | 1.090 | 0.61 |
| 13_F | 62_D | 1.072 | 0.59 |
| 56_V | 78_D | 1.069 | 0.59 |
| 11_I | 55_S | 1.061 | 0.58 |
| 16_Q | 45_L | 1.042 | 0.56 |
| 53_V | 74_Y | 1.015 | 0.53 |
| 13_F | 40_V | 1.007 | 0.52 |
| 18_V | 21_Q | 1.001 | 0.51 |
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 | |
| 2z30B | 1 | 0.7738 | 98.9 | 0.443 | Contact Map |
| 3cnqP | 1 | 0.8214 | 98.7 | 0.467 | Contact Map |
| 3whiA | 2 | 0.8571 | 98.6 | 0.495 | Contact Map |
| 1v5iB | 1 | 0.8571 | 98.4 | 0.519 | Contact Map |
| 3wiuA | 3 | 0.7857 | 98.4 | 0.522 | Contact Map |
| 3afgA | 2 | 0.869 | 98.2 | 0.543 | Contact Map |
| 2w2nP | 1 | 0.9405 | 98.2 | 0.549 | Contact Map |
| 4nmxA | 1 | 0.9524 | 98.1 | 0.555 | Contact Map |
| 3t41A | 2 | 0.7976 | 97.6 | 0.606 | Contact Map |
| 2p4eP | 2 | 0.9524 | 97.6 | 0.608 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)