| ob_ul2 |
| ID: | 1696267859 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 48 (46) | ||
| Sequences: | 2807 (1092.5) | ||
| Seq/Len: | 61.022 | ||
| Nf(neff/√len): | 161.1 |
HHblits Results: (2016_02)
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 |
| 8_A | 24_H | 3.793 | 1.00 |
| 13_D | 16_R | 2.707 | 1.00 |
| 24_H | 30_K | 2.681 | 1.00 |
| 40_Q | 43_Q | 2.529 | 1.00 |
| 21_A | 35_A | 2.159 | 1.00 |
| 36_P | 39_L | 2.145 | 1.00 |
| 4_P | 44_Q | 2.070 | 1.00 |
| 5_A | 23_L | 1.897 | 1.00 |
| 7_V | 39_L | 1.896 | 1.00 |
| 8_A | 30_K | 1.552 | 1.00 |
| 4_P | 46_V | 1.509 | 1.00 |
| 4_P | 26_V | 1.415 | 1.00 |
| 5_A | 25_Y | 1.365 | 0.99 |
| 9_A | 22_L | 1.271 | 0.99 |
| 9_A | 41_V | 1.249 | 0.99 |
| 22_L | 32_Y | 1.210 | 0.98 |
| 6_K | 44_Q | 1.199 | 0.98 |
| 21_A | 39_L | 1.175 | 0.98 |
| 39_L | 45_V | 1.159 | 0.97 |
| 10_I | 18_A | 1.099 | 0.96 |
| 12_Y | 15_N | 1.086 | 0.96 |
| 7_V | 23_L | 1.044 | 0.94 |
| 6_K | 24_H | 1.034 | 0.94 |
| 26_V | 44_Q | 1.031 | 0.94 |
| 11_E | 20_I | 1.016 | 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 | |
| 3j21B | 1 | 1 | 99.4 | -0.117 | Contact Map |
| 1vq8A | 1 | 1 | 99.4 | -0.115 | Contact Map |
| 4a17A | 1 | 1 | 99.4 | -0.108 | Contact Map |
| 4ujqD | 1 | 1 | 99.4 | -0.106 | Contact Map |
| 4rb6D | 1 | 1 | 99.4 | -0.103 | Contact Map |
| 1rl2A | 2 | 1 | 99.4 | -0.103 | Contact Map |
| 3zf7e | 1 | 0.4167 | 99.4 | -0.102 | Contact Map |
| 1giyD | 1 | 1 | 99.4 | -0.101 | Contact Map |
| 3bboE | 1 | 1 | 99.4 | -0.1 | Contact Map |
| 3j61A | 1 | 1 | 99.4 | -0.099 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)