| RcnRparsed |
| ID: | 1507627765 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 90 (90) | ||
| Sequences: | 3028 (1786.8) | ||
| Seq/Len: | 33.644 | ||
| Nf(neff/√len): | 188.3 |
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: 33.644).
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 |
| 19_Q | 23_V | 5.372 | 1.00 |
| 16_S | 26_K | 3.382 | 1.00 |
| 9_Q | 13_A | 2.817 | 1.00 |
| 27_K | 31_E | 2.688 | 1.00 |
| 22_V | 45_I | 2.252 | 1.00 |
| 13_A | 17_K | 2.166 | 1.00 |
| 46_R | 50_N | 1.995 | 1.00 |
| 25_L | 45_I | 1.889 | 1.00 |
| 8_K | 32_P | 1.759 | 1.00 |
| 18_I | 22_V | 1.717 | 1.00 |
| 33_H | 37_A | 1.705 | 1.00 |
| 12_K | 26_K | 1.700 | 1.00 |
| 15_A | 29_L | 1.686 | 1.00 |
| 42_I | 53_M | 1.631 | 1.00 |
| 18_I | 52_L | 1.624 | 1.00 |
| 34_E | 37_A | 1.597 | 1.00 |
| 19_Q | 26_K | 1.566 | 1.00 |
| 7_D | 10_K | 1.544 | 1.00 |
| 11_L | 29_L | 1.525 | 1.00 |
| 21_Q | 24_A | 1.461 | 1.00 |
| 79_D | 83_K | 1.456 | 1.00 |
| 10_K | 13_A | 1.436 | 1.00 |
| 45_I | 49_V | 1.324 | 0.99 |
| 12_K | 30_D | 1.301 | 0.99 |
| 15_A | 22_V | 1.299 | 0.99 |
| 77_D | 80_V | 1.264 | 0.99 |
| 14_R | 48_A | 1.252 | 0.99 |
| 19_Q | 22_V | 1.234 | 0.98 |
| 17_K | 21_Q | 1.229 | 0.98 |
| 21_Q | 45_I | 1.173 | 0.98 |
| 58_K | 86_D | 1.151 | 0.97 |
| 18_I | 45_I | 1.134 | 0.97 |
| 10_K | 55_E | 1.107 | 0.96 |
| 18_I | 48_A | 1.094 | 0.96 |
| 23_V | 27_K | 1.093 | 0.96 |
| 58_K | 62_T | 1.089 | 0.96 |
| 42_I | 52_L | 1.084 | 0.96 |
| 35_C | 64_H | 1.063 | 0.95 |
| 66_V | 70_D | 1.059 | 0.95 |
| 54_R | 86_D | 1.043 | 0.94 |
| 67_H | 70_D | 1.021 | 0.93 |
| 24_A | 28_M | 1.020 | 0.93 |
| 36_A | 80_V | 1.014 | 0.93 |
| 46_R | 53_M | 1.011 | 0.93 |
| 41_Q | 44_A | 1.003 | 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 | |
| 4m1pA | 1 | 1 | 99.9 | -0.013 | Contact Map |
| 2hh7A | 1 | 0.9333 | 99.9 | 0.006 | Contact Map |
| 4adzA | 2 | 0.9667 | 99.9 | 0.013 | Contact Map |
| 3aaiA | 4 | 0.8889 | 99.9 | 0.054 | Contact Map |
| 2fb5A | 3 | 0.9111 | 65.5 | 0.845 | Contact Map |
| 1gaxA | 2 | 0.7556 | 12.8 | 0.895 | Contact Map |
| 4qinA | 1 | 0.8111 | 12.5 | 0.895 | Contact Map |
| 3frtA | 2 | 0.7667 | 11.4 | 0.897 | Contact Map |
| 2gd5A | 4 | 0.8333 | 7.9 | 0.904 | Contact Map |
| 2hyeC | 1 | 0.9667 | 4.9 | 0.913 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)