| O54848_MOUSE |
| ID: | 1408920749 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 81 (80) | ||
| Sequences: | 645 (415.1) | ||
| Seq/Len: | 8.062 | ||
| Nf(neff/√len): | 46.4 |
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: 8.062).
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 |
| 14_L | 32_M | 3.461 | 1.00 |
| 2_V | 9_R | 1.665 | 1.00 |
| 26_D | 30_C | 1.607 | 1.00 |
| 2_V | 20_L | 1.583 | 1.00 |
| 74_G | 77_T | 1.521 | 1.00 |
| 74_G | 78_K | 1.509 | 1.00 |
| 75_N | 78_K | 1.506 | 1.00 |
| 76_C | 80_Y | 1.463 | 0.99 |
| 16_C | 26_D | 1.422 | 0.99 |
| 16_C | 30_C | 1.387 | 0.99 |
| 75_N | 80_Y | 1.351 | 0.99 |
| 73_Y | 79_Y | 1.341 | 0.99 |
| 24_P | 30_C | 1.319 | 0.98 |
| 26_D | 36_S | 1.310 | 0.98 |
| 30_C | 36_S | 1.298 | 0.98 |
| 3_L | 44_L | 1.289 | 0.98 |
| 72_E | 75_N | 1.286 | 0.98 |
| 73_Y | 80_Y | 1.275 | 0.98 |
| 11_S | 14_L | 1.267 | 0.98 |
| 7_S | 64_F | 1.261 | 0.98 |
| 72_E | 79_Y | 1.254 | 0.98 |
| 73_Y | 77_T | 1.235 | 0.97 |
| 23_F | 35_E | 1.227 | 0.97 |
| 77_T | 80_Y | 1.213 | 0.97 |
| 10_L | 14_L | 1.202 | 0.97 |
| 73_Y | 78_K | 1.193 | 0.97 |
| 38_G | 46_F | 1.193 | 0.97 |
| 10_L | 17_P | 1.192 | 0.97 |
| 16_C | 36_S | 1.176 | 0.96 |
| 26_D | 37_F | 1.172 | 0.96 |
| 7_S | 28_Q | 1.171 | 0.96 |
| 73_Y | 76_C | 1.167 | 0.96 |
| 25_M | 60_A | 1.143 | 0.95 |
| 18_L | 28_Q | 1.137 | 0.95 |
| 13_T | 20_L | 1.112 | 0.94 |
| 37_F | 48_W | 1.098 | 0.94 |
| 42_D | 45_R | 1.086 | 0.93 |
| 7_S | 34_L | 1.082 | 0.93 |
| 6_M | 40_T | 1.076 | 0.93 |
| 25_M | 63_Q | 1.066 | 0.93 |
| 74_G | 80_Y | 1.061 | 0.92 |
| 37_F | 42_D | 1.060 | 0.92 |
| 46_F | 59_I | 1.049 | 0.92 |
| 11_S | 43_D | 1.044 | 0.92 |
| 23_F | 29_R | 1.043 | 0.92 |
| 41_T | 45_R | 1.018 | 0.90 |
| 75_N | 79_Y | 1.001 | 0.89 |
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 | |
| 3rhwA | 5 | 0.9753 | 99.6 | 0.362 | Contact Map |
| 3igqA | 6 | 0.9259 | 99.6 | 0.365 | Contact Map |
| 4cofA | 5 | 0.9753 | 99.6 | 0.386 | Contact Map |
| 4hfiA | 5 | 0.963 | 99.6 | 0.387 | Contact Map |
| 3rqwA | 10 | 0.963 | 99.6 | 0.4 | Contact Map |
| 2qc1B | 1 | 0.963 | 99.5 | 0.412 | Contact Map |
| 2bg9A | 2 | 0.963 | 99.5 | 0.413 | Contact Map |
| 4aq5A | 2 | 0.963 | 99.5 | 0.421 | Contact Map |
| 2bg9E | 1 | 0.9383 | 99.5 | 0.429 | Contact Map |
| 2bg9B | 1 | 0.9753 | 99.5 | 0.434 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)