| AAC1 |
| ID: | 1468847729 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 85 (75) | ||
| Sequences: | 17036 (10089.1) | ||
| Seq/Len: | 227.147 | ||
| Nf(neff/√len): | 1165.0 |
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: 227.147).
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 |
| 66_R | 74_F | 2.329 | 1.00 |
| 65_I | 73_G | 2.208 | 1.00 |
| 60_D | 64_A | 2.156 | 1.00 |
| 64_A | 68_E | 2.048 | 1.00 |
| 18_V | 78_F | 1.910 | 1.00 |
| 27_L | 31_H | 1.884 | 1.00 |
| 25_T | 29_R | 1.837 | 1.00 |
| 63_N | 67_R | 1.770 | 1.00 |
| 55_Y | 61_C | 1.738 | 1.00 |
| 56_E | 60_D | 1.730 | 1.00 |
| 26_V | 62_I | 1.659 | 1.00 |
| 21_F | 25_T | 1.634 | 1.00 |
| 57_G | 60_D | 1.625 | 1.00 |
| 21_F | 81_I | 1.620 | 1.00 |
| 13_S | 24_E | 1.576 | 1.00 |
| 62_I | 74_F | 1.551 | 1.00 |
| 20_L | 81_I | 1.538 | 1.00 |
| 29_R | 69_E | 1.529 | 1.00 |
| 17_D | 81_I | 1.527 | 1.00 |
| 59_R | 63_N | 1.413 | 1.00 |
| 75_Y | 78_F | 1.355 | 0.99 |
| 17_D | 21_F | 1.301 | 0.99 |
| 63_N | 66_R | 1.235 | 0.98 |
| 70_G | 73_G | 1.228 | 0.98 |
| 26_V | 61_C | 1.196 | 0.98 |
| 7_M | 11_A | 1.185 | 0.98 |
| 9_S | 13_S | 1.145 | 0.97 |
| 7_M | 10_F | 1.139 | 0.97 |
| 81_I | 84_Q | 1.112 | 0.96 |
| 16_A | 20_L | 1.100 | 0.96 |
| 14_L | 82_V | 1.086 | 0.96 |
| 71_T | 75_Y | 1.076 | 0.95 |
| 69_E | 73_G | 1.073 | 0.95 |
| 25_T | 65_I | 1.064 | 0.95 |
| 69_E | 76_K | 1.061 | 0.95 |
| 13_S | 20_L | 1.058 | 0.95 |
| 66_R | 71_T | 1.045 | 0.94 |
| 28_H | 32_I | 1.045 | 0.94 |
| 31_H | 84_Q | 1.037 | 0.94 |
| 4_P | 8_A | 1.034 | 0.94 |
| 60_D | 63_N | 1.034 | 0.94 |
| 24_E | 27_L | 1.028 | 0.94 |
| 12_A | 16_A | 1.010 | 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 | |
| 4c9gA | 1 | 0.8 | 99.2 | 0.023 | Contact Map |
| 1okcA | 1 | 0.8588 | 99.2 | 0.033 | Contact Map |
| 2lckA | 1 | 0.8471 | 99.2 | 0.05 | Contact Map |
| 4i5lB | 2 | 0 | 77.8 | 0.676 | Contact Map |
| 2b0jA | 1 | 0.8706 | 2.3 | 0.86 | Contact Map |
| 3wvfA | 2 | 0.9294 | 1.7 | 0.87 | Contact Map |
| 3qnqA | 4 | 0.5059 | 1.5 | 0.874 | Contact Map |
| 3vjjA | 2 | 0.6353 | 1.5 | 0.874 | Contact Map |
| 5ahwA | 6 | 0.3412 | 1.5 | 0.874 | Contact Map |
| 3fblA | 1 | 0.3647 | 1.3 | 0.878 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)