| 1EIG |
| ID: | 1515666570 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 73 (67) | ||
| Sequences: | 1409 (905.2) | ||
| Seq/Len: | 21.030 | ||
| Nf(neff/√len): | 110.6 |
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: 21.030).
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 |
| 24_Y | 64_D | 3.130 | 1.00 |
| 39_F | 49_G | 2.827 | 1.00 |
| 21_V | 59_Y | 2.690 | 1.00 |
| 6_P | 31_T | 2.284 | 1.00 |
| 7_C | 32_C | 2.192 | 1.00 |
| 50_D | 53_Q | 1.890 | 1.00 |
| 24_Y | 39_F | 1.782 | 1.00 |
| 54_E | 58_R | 1.769 | 1.00 |
| 37_V | 51_P | 1.741 | 1.00 |
| 18_E | 62_N | 1.546 | 1.00 |
| 25_Q | 46_Q | 1.502 | 1.00 |
| 60_M | 64_D | 1.394 | 0.99 |
| 40_T | 46_Q | 1.389 | 0.99 |
| 25_Q | 40_T | 1.379 | 0.99 |
| 18_E | 59_Y | 1.329 | 0.99 |
| 27_S | 34_K | 1.222 | 0.98 |
| 52_K | 62_N | 1.213 | 0.98 |
| 28_S | 35_A | 1.181 | 0.98 |
| 11_F | 35_A | 1.176 | 0.98 |
| 23_S | 40_T | 1.132 | 0.97 |
| 62_N | 66_K | 1.125 | 0.97 |
| 11_F | 50_D | 1.096 | 0.96 |
| 4_P | 9_M | 1.080 | 0.95 |
| 17_P | 41_T | 1.075 | 0.95 |
| 24_Y | 36_G | 1.057 | 0.95 |
| 13_S | 50_D | 1.042 | 0.94 |
| 11_F | 36_G | 1.041 | 0.94 |
| 16_I | 47_S | 1.026 | 0.94 |
| 9_M | 27_S | 1.008 | 0.93 |
| 47_S | 63_L | 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 | |
| 1eigA | 1 | 1 | 99.8 | 0.024 | Contact Map |
| 1eotA | 1 | 0.9863 | 99.8 | 0.063 | Contact Map |
| 2mp1A | 1 | 0 | 99.8 | 0.063 | Contact Map |
| 1esrA | 1 | 0.9863 | 99.7 | 0.065 | Contact Map |
| 1dokA | 2 | 0.9178 | 99.7 | 0.071 | Contact Map |
| 1ha6A | 1 | 0.9452 | 99.7 | 0.078 | Contact Map |
| 4rwsC | 1 | 0.9041 | 99.7 | 0.078 | Contact Map |
| 1m8aA | 2 | 0.8219 | 99.7 | 0.08 | Contact Map |
| 1nr4A | 8 | 0.9315 | 99.7 | 0.088 | Contact Map |
| 4xt1B | 1 | 0.8767 | 99.7 | 0.089 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)