| l27 |
| ID: | 1428512371 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 85 (82) | ||
| Sequences: | 2010 (707) | ||
| Seq/Len: | 24.512 | ||
| Nf(neff/√len): | 78.1 |
Jackhmmer Results: (2015_01_07)
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: 24.512).
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 |
| 21_L | 41_R | 3.888 | 1.00 |
| 53_C | 57_H | 3.551 | 1.00 |
| 25_R | 31_V | 3.517 | 1.00 |
| 52_G | 62_K | 3.127 | 1.00 |
| 25_R | 35_S | 2.995 | 1.00 |
| 32_L | 35_S | 2.969 | 1.00 |
| 51_V | 59_L | 2.528 | 1.00 |
| 70_E | 81_S | 2.294 | 1.00 |
| 23_V | 38_V | 2.228 | 1.00 |
| 52_G | 60_F | 1.975 | 1.00 |
| 25_R | 29_E | 1.912 | 1.00 |
| 54_G | 58_T | 1.901 | 1.00 |
| 45_F | 80_I | 1.810 | 1.00 |
| 30_S | 66_K | 1.768 | 1.00 |
| 38_V | 45_F | 1.745 | 1.00 |
| 71_V | 78_K | 1.722 | 1.00 |
| 45_F | 78_K | 1.717 | 1.00 |
| 46_H | 77_R | 1.701 | 1.00 |
| 17_E | 20_R | 1.655 | 1.00 |
| 33_A | 64_D | 1.484 | 1.00 |
| 72_K | 79_F | 1.454 | 1.00 |
| 70_E | 79_F | 1.398 | 0.99 |
| 23_V | 69_F | 1.388 | 0.99 |
| 32_L | 64_D | 1.339 | 0.99 |
| 23_V | 26_F | 1.269 | 0.99 |
| 41_R | 57_H | 1.267 | 0.99 |
| 30_S | 64_D | 1.253 | 0.99 |
| 39_R | 56_D | 1.250 | 0.99 |
| 43_T | 53_C | 1.237 | 0.98 |
| 53_C | 59_L | 1.229 | 0.98 |
| 25_R | 37_I | 1.173 | 0.98 |
| 27_G | 68_K | 1.167 | 0.97 |
| 25_R | 67_V | 1.159 | 0.97 |
| 25_R | 32_L | 1.125 | 0.97 |
| 43_T | 57_H | 1.071 | 0.95 |
| 7_G | 10_T | 1.041 | 0.94 |
| 31_V | 35_S | 1.027 | 0.94 |
| 31_V | 37_I | 1.018 | 0.93 |
| 47_A | 59_L | 1.014 | 0.93 |
| 33_A | 62_K | 1.001 | 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 | |
| 2zjrT | 1 | 0.9765 | 100 | 0.027 | Contact Map |
| 1v8qA | 4 | 0.7647 | 100 | 0.028 | Contact Map |
| 4csuY | 1 | 0.9294 | 100 | 0.043 | Contact Map |
| 3j7yW | 1 | 0.8588 | 100 | 0.068 | Contact Map |
| 4ifdG | 1 | 0.6941 | 86.3 | 0.867 | Contact Map |
| 2ba0A | 3 | 0.5647 | 83 | 0.872 | Contact Map |
| 2nn6G | 1 | 0.6 | 82.4 | 0.873 | Contact Map |
| 4ifdI | 1 | 0.7647 | 74.3 | 0.882 | Contact Map |
| 2nn6I | 1 | 0.6235 | 74.3 | 0.882 | Contact Map |
| 4ifdH | 1 | 0.6824 | 73.8 | 0.882 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)