| ldlcincuentaysiete |
| ID: | 1431614288 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 68 (68) | ||
| Sequences: | 5396 (3702.6) | ||
| Seq/Len: | 79.353 | ||
| Nf(neff/√len): | 449.0 |
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: 79.353).
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 |
| 22_A | 27_H | 3.166 | 1.00 |
| 51_W | 56_V | 3.027 | 1.00 |
| 57_N | 62_N | 2.917 | 1.00 |
| 22_A | 25_T | 2.872 | 1.00 |
| 54_D | 58_D | 2.774 | 1.00 |
| 16_L | 21_W | 2.600 | 1.00 |
| 19_D | 23_D | 2.597 | 1.00 |
| 57_N | 60_G | 2.439 | 1.00 |
| 7_R | 31_L | 1.891 | 1.00 |
| 14_K | 17_R | 1.843 | 1.00 |
| 51_W | 54_D | 1.813 | 1.00 |
| 49_L | 52_V | 1.789 | 1.00 |
| 39_F | 52_V | 1.742 | 1.00 |
| 42_K | 63_S | 1.684 | 1.00 |
| 42_K | 66_Q | 1.673 | 1.00 |
| 48_P | 51_W | 1.594 | 1.00 |
| 4_F | 17_R | 1.591 | 1.00 |
| 16_L | 19_D | 1.549 | 1.00 |
| 7_R | 28_S | 1.498 | 1.00 |
| 13_R | 16_L | 1.455 | 1.00 |
| 16_L | 23_D | 1.438 | 1.00 |
| 45_F | 60_G | 1.400 | 0.99 |
| 10_R | 25_T | 1.375 | 0.99 |
| 34_C | 46_C | 1.364 | 0.99 |
| 4_F | 28_S | 1.240 | 0.98 |
| 39_F | 63_S | 1.209 | 0.98 |
| 38_Q | 48_P | 1.147 | 0.97 |
| 51_W | 58_D | 1.122 | 0.97 |
| 35_D | 38_Q | 1.075 | 0.95 |
| 40_T | 44_K | 1.065 | 0.95 |
| 5_T | 9_G | 1.042 | 0.94 |
| 12_I | 16_L | 1.037 | 0.94 |
| 2_G | 14_K | 1.021 | 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 | |
| 3m0cC | 1 | 0 | 99.8 | 0.04 | Contact Map |
| 1n7dA | 1 | 0.9265 | 99.8 | 0.045 | Contact Map |
| 2fyjA | 1 | 1 | 99.8 | 0.059 | Contact Map |
| 2fcwB | 1 | 1 | 99.8 | 0.076 | Contact Map |
| 3ojyA | 1 | 1 | 99.4 | 0.276 | Contact Map |
| 2gtlM | 1 | 0.8382 | 99.4 | 0.297 | Contact Map |
| 2xrcA | 4 | 0.9853 | 99.2 | 0.348 | Contact Map |
| 2gtlO | 1 | 1 | 99.1 | 0.384 | Contact Map |
| 3ojyB | 1 | 0.9412 | 99 | 0.397 | Contact Map |
| 2knyA | 1 | 0.8971 | 99 | 0.401 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)