| 2M7G |
| ID: | 1477645694 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 61 (60) | ||
| Sequences: | 9340 (6656.7) | ||
| Seq/Len: | 155.667 | ||
| Nf(neff/√len): | 859.4 |
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: 155.667).
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 |
| 35_A | 39_D | 2.601 | 1.00 |
| 47_L | 58_P | 2.230 | 1.00 |
| 20_A | 24_F | 2.219 | 1.00 |
| 28_R | 32_Y | 2.096 | 1.00 |
| 41_R | 45_T | 2.032 | 1.00 |
| 50_A | 54_D | 1.948 | 1.00 |
| 42_N | 46_A | 1.744 | 1.00 |
| 45_T | 49_S | 1.741 | 1.00 |
| 44_K | 48_E | 1.703 | 1.00 |
| 33_N | 36_A | 1.680 | 1.00 |
| 26_A | 29_V | 1.615 | 1.00 |
| 36_A | 39_D | 1.569 | 1.00 |
| 21_I | 25_S | 1.557 | 1.00 |
| 41_R | 44_K | 1.485 | 1.00 |
| 33_N | 37_S | 1.468 | 1.00 |
| 27_Y | 30_K | 1.428 | 1.00 |
| 24_F | 28_R | 1.376 | 0.99 |
| 34_S | 37_S | 1.334 | 0.99 |
| 47_L | 51_F | 1.308 | 0.99 |
| 42_N | 45_T | 1.301 | 0.99 |
| 39_D | 43_L | 1.143 | 0.97 |
| 47_L | 57_Y | 1.140 | 0.97 |
| 36_A | 40_L | 1.095 | 0.96 |
| 30_K | 34_S | 1.067 | 0.95 |
| 26_A | 30_K | 1.066 | 0.95 |
| 51_F | 57_Y | 1.044 | 0.94 |
| 48_E | 57_Y | 1.031 | 0.94 |
| 17_A | 21_I | 1.028 | 0.94 |
| 49_S | 53_D | 1.014 | 0.93 |
| 23_Q | 26_A | 1.009 | 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 | |
| 2hi2A | 1 | 0.9836 | 99.2 | 0.007 | Contact Map |
| 3sokA | 2 | 1 | 99.2 | 0.014 | Contact Map |
| 2m7gA | 1 | 1 | 99.1 | 0.049 | Contact Map |
| 1oqwA | 2 | 1 | 99 | 0.077 | Contact Map |
| 3g20A | 2 | 0.7213 | 98.2 | 0.303 | Contact Map |
| 3gn9A | 3 | 0.5902 | 96.3 | 0.494 | Contact Map |
| 1t92A | 2 | 0.5902 | 96.1 | 0.503 | Contact Map |
| 2kepA | 1 | 0.6066 | 96 | 0.508 | Contact Map |
| 4noaA | 1 | 0.5738 | 90 | 0.611 | Contact Map |
| 2m3kA | 1 | 0.6066 | 83.7 | 0.647 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)