| C Alpha only Constant Domains |
| ID: | 1494013448 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 78 (75) | ||
| Sequences: | 1111 (746.5) | ||
| Seq/Len: | 14.813 | ||
| Nf(neff/√len): | 86.2 |
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: 14.813).
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 |
| 25_F | 35_S | 3.013 | 1.00 |
| 28_F | 77_F | 2.247 | 1.00 |
| 38_K | 69_S | 1.949 | 1.00 |
| 15_S | 18_S | 1.877 | 1.00 |
| 36_Q | 76_A | 1.854 | 1.00 |
| 7_P | 11_Q | 1.746 | 1.00 |
| 14_D | 65_W | 1.642 | 1.00 |
| 7_P | 12_L | 1.577 | 1.00 |
| 40_S | 74_A | 1.375 | 0.99 |
| 32_T | 40_S | 1.371 | 0.99 |
| 38_K | 70_D | 1.355 | 0.99 |
| 7_P | 65_W | 1.341 | 0.99 |
| 32_T | 78_N | 1.333 | 0.99 |
| 5_P | 59_S | 1.282 | 0.99 |
| 27_D | 57_F | 1.278 | 0.99 |
| 30_S | 77_F | 1.250 | 0.99 |
| 35_S | 75_N | 1.244 | 0.98 |
| 22_V | 63_V | 1.235 | 0.98 |
| 24_L | 58_K | 1.182 | 0.98 |
| 4_N | 48_C | 1.167 | 0.97 |
| 28_F | 33_N | 1.117 | 0.96 |
| 24_L | 63_V | 1.110 | 0.96 |
| 14_D | 18_S | 1.098 | 0.96 |
| 36_Q | 41_D | 1.091 | 0.96 |
| 55_M | 59_S | 1.084 | 0.96 |
| 64_A | 71_F | 1.068 | 0.95 |
| 25_F | 62_A | 1.063 | 0.95 |
| 25_F | 75_N | 1.054 | 0.95 |
| 28_F | 35_S | 1.041 | 0.94 |
| 12_L | 58_K | 1.034 | 0.94 |
| 64_A | 69_S | 1.033 | 0.94 |
| 14_D | 20_K | 1.030 | 0.94 |
| 26_T | 71_F | 1.027 | 0.94 |
| 72_A | 77_F | 1.018 | 0.93 |
| 60_N | 71_F | 1.017 | 0.93 |
| 34_V | 76_A | 1.016 | 0.93 |
| 24_L | 65_W | 1.014 | 0.93 |
| 47_K | 50_L | 1.008 | 0.93 |
| 42_V | 64_A | 1.005 | 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 | |
| 1fneB | 2 | 0.9872 | 99.2 | 0.285 | Contact Map |
| 2qrtA | 2 | 0.9872 | 99.2 | 0.289 | Contact Map |
| 2p24B | 1 | 0.9359 | 99.2 | 0.29 | Contact Map |
| 1k5nA | 1 | 0.9872 | 99.2 | 0.295 | Contact Map |
| 4p5mB | 4 | 0.9872 | 99.2 | 0.296 | Contact Map |
| 1r3hA | 4 | 0.9872 | 99.2 | 0.297 | Contact Map |
| 1iaoB | 1 | 0.9872 | 99.2 | 0.297 | Contact Map |
| 4lldA | 1 | 0.9487 | 99.2 | 0.298 | Contact Map |
| 1mhcA | 2 | 0.9872 | 99.2 | 0.3 | Contact Map |
| 4md5B | 1 | 0.9872 | 99.2 | 0.302 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)