| OB-fold_CSP |
| ID: | 1511906053 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 76 (72) | ||
| Sequences: | 20995 (11978.1) | ||
| Seq/Len: | 291.597 | ||
| Nf(neff/√len): | 1411.6 |
Jackhmmer Results: (2016_04)
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: 291.597).
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 |
| 10_T | 57_P | 3.720 | 1.00 |
| 10_T | 55_E | 2.593 | 1.00 |
| 51_Q | 54_Q | 2.578 | 1.00 |
| 8_V | 59_K | 2.509 | 1.00 |
| 12_K | 55_E | 2.404 | 1.00 |
| 31_G | 71_L | 2.330 | 1.00 |
| 11_G | 23_V | 2.328 | 1.00 |
| 21_A | 50_L | 2.219 | 1.00 |
| 14_T | 24_A | 2.093 | 1.00 |
| 37_Q | 61_L | 1.980 | 1.00 |
| 8_V | 57_P | 1.867 | 1.00 |
| 20_G | 32_L | 1.848 | 1.00 |
| 62_E | 70_R | 1.827 | 1.00 |
| 4_E | 7_R | 1.752 | 1.00 |
| 33_V | 71_L | 1.659 | 1.00 |
| 34_H | 70_R | 1.611 | 1.00 |
| 14_T | 30_E | 1.608 | 1.00 |
| 11_G | 58_V | 1.518 | 1.00 |
| 56_V | 73_I | 1.506 | 1.00 |
| 38_I | 46_V | 1.435 | 1.00 |
| 12_K | 24_A | 1.427 | 1.00 |
| 45_K | 48_D | 1.360 | 0.99 |
| 61_L | 72_S | 1.340 | 0.99 |
| 34_H | 37_Q | 1.244 | 0.98 |
| 16_I | 52_M | 1.240 | 0.98 |
| 38_I | 50_L | 1.224 | 0.98 |
| 33_V | 58_V | 1.219 | 0.98 |
| 19_F | 32_L | 1.187 | 0.98 |
| 58_V | 71_L | 1.171 | 0.98 |
| 16_I | 21_A | 1.159 | 0.97 |
| 33_V | 73_I | 1.155 | 0.97 |
| 17_V | 22_F | 1.146 | 0.97 |
| 5_V | 62_E | 1.127 | 0.97 |
| 15_R | 52_M | 1.058 | 0.95 |
| 15_R | 22_F | 1.026 | 0.94 |
| 23_V | 33_V | 1.025 | 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 | |
| 4nbqA | 3 | 0 | 99.6 | 0.147 | Contact Map |
| 3cdiA | 1 | 0 | 99.6 | 0.148 | Contact Map |
| 4aidA | 3 | 0 | 99.6 | 0.158 | Contact Map |
| 3psfA | 1 | 0 | 99.5 | 0.164 | Contact Map |
| 3psiA | 1 | 1 | 99.5 | 0.171 | Contact Map |
| 3bzcA | 1 | 1 | 99.5 | 0.187 | Contact Map |
| 1q8kA | 1 | 1 | 99.5 | 0.202 | Contact Map |
| 2k4kA | 1 | 1 | 99.5 | 0.205 | Contact Map |
| 1e3pA | 1 | 0.5132 | 99.5 | 0.207 | Contact Map |
| 2khjA | 1 | 1 | 99.4 | 0.217 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)