| 2ACY |
| ID: | 1430301865 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 101 (92) | ||
| Sequences: | 2008 (1659.3) | ||
| Seq/Len: | 21.826 | ||
| Nf(neff/√len): | 173.0 |
HHblits Results: (2013_03)
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: 21.826).
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 |
| 17_F | 49_T | 2.573 | 1.00 |
| 30_Q | 34_K | 2.416 | 1.00 |
| 32_E | 35_K | 2.326 | 1.00 |
| 15_E | 49_T | 2.296 | 1.00 |
| 54_L | 64_M | 2.280 | 1.00 |
| 11_S | 55_Q | 2.207 | 1.00 |
| 17_F | 80_R | 2.198 | 1.00 |
| 43_Q | 51_Q | 2.175 | 1.00 |
| 45_T | 51_Q | 2.170 | 1.00 |
| 28_Y | 67_W | 2.122 | 1.00 |
| 24_F | 27_K | 2.064 | 1.00 |
| 11_S | 53_Q | 1.985 | 1.00 |
| 14_Y | 65_Q | 1.900 | 1.00 |
| 29_T | 68_L | 1.875 | 1.00 |
| 36_L | 67_W | 1.740 | 1.00 |
| 38_L | 54_L | 1.673 | 1.00 |
| 55_Q | 93_D | 1.644 | 1.00 |
| 41_W | 100_V | 1.640 | 1.00 |
| 67_W | 71_K | 1.607 | 1.00 |
| 13_D | 51_Q | 1.601 | 1.00 |
| 41_W | 53_Q | 1.594 | 1.00 |
| 15_E | 45_T | 1.593 | 1.00 |
| 16_I | 81_A | 1.407 | 0.99 |
| 58_A | 62_R | 1.383 | 0.99 |
| 73_S | 76_S | 1.382 | 0.99 |
| 39_V | 96_D | 1.352 | 0.99 |
| 14_Y | 52_G | 1.270 | 0.99 |
| 35_K | 67_W | 1.267 | 0.99 |
| 38_L | 56_G | 1.256 | 0.99 |
| 65_Q | 83_F | 1.254 | 0.99 |
| 17_F | 82_S | 1.244 | 0.98 |
| 10_I | 58_A | 1.232 | 0.98 |
| 12_V | 85_N | 1.229 | 0.98 |
| 16_I | 52_G | 1.211 | 0.98 |
| 54_L | 61_V | 1.205 | 0.98 |
| 16_I | 25_F | 1.182 | 0.98 |
| 52_G | 64_M | 1.151 | 0.97 |
| 54_L | 68_L | 1.146 | 0.97 |
| 63_H | 66_E | 1.122 | 0.97 |
| 23_V | 26_R | 1.077 | 0.95 |
| 12_V | 83_F | 1.077 | 0.95 |
| 45_T | 49_T | 1.064 | 0.95 |
| 16_I | 78_I | 1.057 | 0.95 |
| 53_Q | 94_Y | 1.049 | 0.94 |
| 39_V | 55_Q | 1.040 | 0.94 |
| 72_G | 76_S | 1.030 | 0.94 |
| 14_Y | 68_L | 1.028 | 0.94 |
| 57_P | 60_K | 1.014 | 0.93 |
| 43_Q | 100_V | 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 | |
| 1urrA | 1 | 0.9604 | 100 | 0.076 | Contact Map |
| 3vthA | 2 | 0.9109 | 100 | 0.079 | Contact Map |
| 1apsA | 1 | 0.9703 | 100 | 0.088 | Contact Map |
| 4g9iA | 6 | 0.8911 | 100 | 0.089 | Contact Map |
| 2lxfA | 1 | 0.9604 | 100 | 0.093 | Contact Map |
| 2vh7A | 1 | 0.9307 | 100 | 0.103 | Contact Map |
| 2bjdA | 2 | 0.8911 | 100 | 0.112 | Contact Map |
| 2fhmA | 1 | 0.8911 | 100 | 0.113 | Contact Map |
| 2gv1A | 1 | 0.9109 | 100 | 0.116 | Contact Map |
| 1w2iA | 2 | 0.8911 | 100 | 0.119 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)