| SubBPNPro |
| ID: | 1513643764 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 77 (75) | ||
| Sequences: | 2367 (1920.2) | ||
| Seq/Len: | 31.560 | ||
| Nf(neff/√len): | 221.7 |
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: 31.560).
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 |
| 13_G | 67_Y | 4.486 | 1.00 |
| 9_K | 71_D | 3.485 | 1.00 |
| 15_K | 66_A | 3.185 | 1.00 |
| 5_N | 70_E | 3.022 | 1.00 |
| 56_V | 60_K | 2.496 | 1.00 |
| 13_G | 66_A | 2.101 | 1.00 |
| 8_K | 70_E | 2.038 | 1.00 |
| 57_K | 60_K | 2.009 | 1.00 |
| 9_K | 50_T | 2.009 | 1.00 |
| 56_V | 68_V | 1.919 | 1.00 |
| 26_K | 47_A | 1.873 | 1.00 |
| 52_N | 55_A | 1.768 | 1.00 |
| 40_Q | 48_S | 1.657 | 1.00 |
| 71_D | 74_A | 1.652 | 1.00 |
| 56_V | 59_L | 1.536 | 1.00 |
| 26_K | 30_I | 1.444 | 1.00 |
| 9_K | 38_Q | 1.436 | 1.00 |
| 59_L | 68_V | 1.392 | 0.99 |
| 19_S | 22_S | 1.389 | 0.99 |
| 14_F | 47_A | 1.347 | 0.99 |
| 51_L | 56_V | 1.280 | 0.99 |
| 9_K | 48_S | 1.251 | 0.99 |
| 65_V | 68_V | 1.246 | 0.98 |
| 38_Q | 48_S | 1.217 | 0.98 |
| 4_S | 75_H | 1.207 | 0.98 |
| 8_K | 53_E | 1.166 | 0.97 |
| 13_G | 44_V | 1.107 | 0.96 |
| 58_E | 61_K | 1.083 | 0.96 |
| 39_K | 48_S | 1.044 | 0.94 |
| 57_K | 61_K | 1.032 | 0.94 |
| 25_K | 28_D | 1.029 | 0.94 |
| 6_G | 73_V | 1.023 | 0.93 |
| 13_G | 16_Q | 1.015 | 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 | |
| 4nmxA | 1 | 1 | 99 | 0.061 | Contact Map |
| 1v5iB | 1 | 0.9351 | 99 | 0.064 | Contact Map |
| 2w2nP | 1 | 1 | 99 | 0.078 | Contact Map |
| 3cnqP | 1 | 0.8961 | 98.9 | 0.089 | Contact Map |
| 2z30B | 1 | 0.8442 | 98.7 | 0.157 | Contact Map |
| 3whiA | 2 | 0.9351 | 98.7 | 0.179 | Contact Map |
| 2p4eP | 2 | 1 | 98.5 | 0.229 | Contact Map |
| 3afgA | 2 | 0.961 | 97.8 | 0.354 | Contact Map |
| 3wiuA | 3 | 0.8571 | 97.7 | 0.364 | Contact Map |
| 3t41A | 2 | 0.8701 | 96.9 | 0.447 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)