| 2X2V |
| ID: | 1448270626 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 69 (68) | ||
| Sequences: | 2221 (1089.9) | ||
| Seq/Len: | 32.662 | ||
| Nf(neff/√len): | 132.2 |
HHblits Results: (2015_06)
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: 32.662).
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 |
| 27_A | 30_E | 4.183 | 1.00 |
| 25_V | 49_G | 3.762 | 1.00 |
| 39_R | 43_Q | 2.626 | 1.00 |
| 21_V | 55_A | 2.200 | 1.00 |
| 28_T | 42_L | 1.964 | 1.00 |
| 32_T | 45_L | 1.850 | 1.00 |
| 65_L | 69_F | 1.746 | 1.00 |
| 13_A | 60_A | 1.605 | 1.00 |
| 21_V | 53_A | 1.567 | 1.00 |
| 38_L | 42_L | 1.542 | 1.00 |
| 43_Q | 47_F | 1.506 | 1.00 |
| 25_V | 50_V | 1.499 | 1.00 |
| 17_G | 21_V | 1.444 | 1.00 |
| 23_I | 27_A | 1.322 | 0.99 |
| 24_I | 53_A | 1.315 | 0.99 |
| 32_T | 38_L | 1.265 | 0.99 |
| 29_I | 45_L | 1.265 | 0.99 |
| 8_I | 12_L | 1.247 | 0.99 |
| 23_I | 26_K | 1.245 | 0.98 |
| 17_G | 57_P | 1.224 | 0.98 |
| 21_V | 50_V | 1.208 | 0.98 |
| 10_A | 60_A | 1.208 | 0.98 |
| 32_T | 39_R | 1.204 | 0.98 |
| 28_T | 46_M | 1.195 | 0.98 |
| 21_V | 56_V | 1.192 | 0.98 |
| 24_I | 46_M | 1.175 | 0.98 |
| 34_R | 37_E | 1.155 | 0.97 |
| 28_T | 32_T | 1.053 | 0.95 |
| 20_A | 53_A | 1.030 | 0.94 |
| 19_I | 23_I | 1.023 | 0.93 |
| 55_A | 58_I | 1.022 | 0.93 |
| 48_I | 52_L | 1.016 | 0.93 |
| 40_G | 44_T | 1.005 | 0.93 |
| 6_A | 9_A | 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 | |
| 4cbkA | 13 | 0.9855 | 99.6 | 0.032 | Contact Map |
| 1a91A | 1 | 1 | 99.6 | 0.042 | Contact Map |
| 4v1gA | 3 | 0 | 99.6 | 0.048 | Contact Map |
| 2xquA | 5 | 1 | 99.6 | 0.05 | Contact Map |
| 1wu0A | 1 | 1 | 99.6 | 0.052 | Contact Map |
| 4f4sA | 10 | 0.9855 | 99.5 | 0.083 | Contact Map |
| 4bemA | 9 | 0.9855 | 99.5 | 0.086 | Contact Map |
| 4bemJ | 1 | 0.9855 | 99.5 | 0.087 | Contact Map |
| 2xndJ | 8 | 0.9855 | 99.5 | 0.089 | Contact Map |
| 3zk1A | 22 | 0.9855 | 99.5 | 0.092 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)