| TRIM27 RINGB-box |
| ID: | 1703172280 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 137 (137) | ||
| Sequences: | 3562 (2439.5) | ||
| Seq/Len: | 26.000 | ||
| Nf(neff/√len): | 208.4 |
HHblits Results: (2016_02)
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 |
| 101_E | 104_K | 3.329 | 1.00 |
| 53_C | 56_C | 3.280 | 1.00 |
| 124_H | 127_H | 2.958 | 1.00 |
| 34_N | 68_N | 2.687 | 1.00 |
| 115_C | 118_C | 2.655 | 1.00 |
| 110_D | 127_H | 2.566 | 1.00 |
| 16_C | 19_C | 2.453 | 1.00 |
| 96_C | 99_H | 2.438 | 1.00 |
| 30_D | 60_F | 2.433 | 1.00 |
| 96_C | 118_C | 2.402 | 1.00 |
| 35_I | 40_L | 2.169 | 1.00 |
| 31_C | 36_C | 2.112 | 1.00 |
| 27_M | 67_P | 2.076 | 1.00 |
| 58_E | 66_R | 2.045 | 1.00 |
| 25_E | 37_C | 1.886 | 1.00 |
| 13_E | 77_L | 1.822 | 1.00 |
| 96_C | 115_C | 1.760 | 1.00 |
| 107_C | 118_C | 1.759 | 1.00 |
| 18_V | 57_R | 1.718 | 1.00 |
| 36_C | 39_C | 1.633 | 1.00 |
| 34_N | 71_L | 1.547 | 1.00 |
| 18_V | 35_I | 1.519 | 1.00 |
| 33_H | 36_C | 1.517 | 1.00 |
| 109_E | 128_S | 1.508 | 1.00 |
| 21_Q | 24_A | 1.481 | 1.00 |
| 107_C | 110_D | 1.447 | 1.00 |
| 99_H | 118_C | 1.429 | 1.00 |
| 31_C | 39_C | 1.411 | 1.00 |
| 99_H | 103_L | 1.410 | 1.00 |
| 98_K | 123_E | 1.398 | 0.99 |
| 68_N | 71_L | 1.304 | 0.99 |
| 27_M | 37_C | 1.300 | 0.99 |
| 107_C | 127_H | 1.283 | 0.99 |
| 33_H | 39_C | 1.268 | 0.99 |
| 107_C | 124_H | 1.264 | 0.99 |
| 72_A | 76_Q | 1.257 | 0.99 |
| 17_P | 55_Q | 1.246 | 0.98 |
| 10_L | 13_E | 1.240 | 0.98 |
| 74_V | 78_V | 1.218 | 0.98 |
| 26_P | 72_A | 1.214 | 0.98 |
| 115_C | 127_H | 1.194 | 0.98 |
| 71_L | 74_V | 1.149 | 0.97 |
| 39_C | 53_C | 1.143 | 0.97 |
| 107_C | 115_C | 1.136 | 0.97 |
| 15_T | 22_Y | 1.134 | 0.97 |
| 27_M | 44_W | 1.132 | 0.97 |
| 29_L | 33_H | 1.090 | 0.96 |
| 32_G | 68_N | 1.072 | 0.95 |
| 3_S | 6_V | 1.069 | 0.95 |
| 16_C | 36_C | 1.069 | 0.95 |
| 37_C | 41_A | 1.054 | 0.95 |
| 99_H | 115_C | 1.054 | 0.95 |
| 96_C | 107_C | 1.054 | 0.95 |
| 17_P | 60_F | 1.040 | 0.94 |
| 54_P | 57_R | 1.015 | 0.93 |
| 99_H | 106_Y | 1.012 | 0.93 |
| 20_L | 57_R | 1.003 | 0.93 |
| 11_Q | 15_T | 1.002 | 0.92 |
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 | |
| 4cfgA | 2 | 0.0219 | 99.9 | 0.058 | Contact Map |
| 4txaA | 1 | 0.5766 | 99.5 | 0.381 | Contact Map |
| 4kblA | 2 | 0.9051 | 99.5 | 0.387 | Contact Map |
| 2c2lA | 4 | 0.6277 | 99.3 | 0.441 | Contact Map |
| 1jm7B | 1 | 0.635 | 99.3 | 0.442 | Contact Map |
| 2f42A | 1 | 0.6131 | 99.3 | 0.448 | Contact Map |
| 1wgmA | 1 | 0.6423 | 99.3 | 0.448 | Contact Map |
| 4tkpB | 1 | 0 | 99.3 | 0.457 | Contact Map |
| 2junA | 1 | 0.708 | 99.3 | 0.458 | Contact Map |
| 1z6uA | 2 | 0.6131 | 99.3 | 0.462 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)