| Prolactin CUT noah |
| ID: | 1465204292 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 56 (56) | ||
| Sequences: | 89 (60.7) | ||
| Seq/Len: | 1.589 | ||
| Nf(neff/√len): | 8.1 |
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: 1.589).
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 |
| 53_V | 56_P | 2.065 | 0.99 |
| 52_P | 56_P | 1.925 | 0.98 |
| 19_V | 33_I | 1.767 | 0.95 |
| 1_S | 8_I | 1.614 | 0.92 |
| 1_S | 4_T | 1.507 | 0.88 |
| 16_D | 26_L | 1.468 | 0.86 |
| 42_G | 45_M | 1.463 | 0.85 |
| 14_M | 33_I | 1.352 | 0.79 |
| 17_T | 50_F | 1.349 | 0.78 |
| 20_W | 27_S | 1.323 | 0.77 |
| 24_A | 38_V | 1.281 | 0.73 |
| 22_S | 31_C | 1.240 | 0.70 |
| 51_P | 56_P | 1.218 | 0.68 |
| 51_P | 54_P | 1.218 | 0.68 |
| 8_I | 25_V | 1.206 | 0.67 |
| 7_Q | 30_I | 1.188 | 0.65 |
| 21_I | 40_L | 1.182 | 0.64 |
| 45_M | 49_I | 1.125 | 0.59 |
| 35_V | 38_V | 1.097 | 0.56 |
| 50_F | 54_P | 1.094 | 0.55 |
| 50_F | 56_P | 1.094 | 0.55 |
| 3_A | 7_Q | 1.085 | 0.55 |
| 10_S | 23_V | 1.083 | 0.54 |
| 20_W | 36_W | 1.076 | 0.54 |
| 19_V | 23_V | 1.074 | 0.53 |
| 45_M | 50_F | 1.062 | 0.52 |
| 1_S | 50_F | 1.044 | 0.50 |
| 36_W | 55_G | 1.022 | 0.48 |
| 2_P | 37_A | 1.012 | 0.47 |
| 26_L | 34_I | 1.003 | 0.46 |
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 | |
| 3lb6C | 1 | 0.0536 | 58.5 | 0.824 | Contact Map |
| 2mv6A | 1 | 0.8571 | 12.7 | 0.876 | Contact Map |
| 1co7I | 1 | 0.0893 | 6.1 | 0.892 | Contact Map |
| 4y3uB | 1 | 0.5357 | 3.8 | 0.902 | Contact Map |
| 3i3fA | 3 | 0.2321 | 3.7 | 0.903 | Contact Map |
| 1q55A | 4 | 0.2143 | 3.6 | 0.904 | Contact Map |
| 4lxjA | 1 | 0.9107 | 3.6 | 0.904 | Contact Map |
| 4wl1A | 32 | 0.2857 | 3.4 | 0.905 | Contact Map |
| 3wtdA | 2 | 0.2321 | 3.4 | 0.905 | Contact Map |
| 3czhA | 2 | 0.1429 | 3.2 | 0.906 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)