| bbs_2_sheetp1 |
| ID: | 1501723156 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 86 (75) | ||
| Sequences: | 126 (97.4) | ||
| Seq/Len: | 1.680 | ||
| Nf(neff/√len): | 11.2 |
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: 1.680).
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 |
| 30_I | 55_H | 1.787 | 0.96 |
| 46_S | 74_L | 1.660 | 0.94 |
| 35_L | 71_P | 1.575 | 0.91 |
| 24_S | 27_N | 1.550 | 0.90 |
| 59_S | 74_L | 1.535 | 0.90 |
| 37_F | 45_E | 1.530 | 0.90 |
| 38_A | 75_H | 1.487 | 0.88 |
| 21_L | 70_I | 1.477 | 0.87 |
| 31_I | 37_F | 1.423 | 0.84 |
| 76_L | 85_S | 1.408 | 0.84 |
| 28_D | 62_I | 1.380 | 0.82 |
| 56_L | 60_V | 1.367 | 0.81 |
| 40_G | 50_H | 1.326 | 0.78 |
| 23_I | 84_S | 1.323 | 0.78 |
| 17_A | 68_K | 1.319 | 0.78 |
| 9_S | 20_E | 1.297 | 0.76 |
| 32_R | 38_A | 1.271 | 0.74 |
| 67_P | 71_P | 1.238 | 0.71 |
| 49_V | 68_K | 1.236 | 0.71 |
| 26_S | 76_L | 1.234 | 0.71 |
| 78_T | 83_R | 1.192 | 0.67 |
| 34_V | 60_V | 1.186 | 0.66 |
| 31_I | 60_V | 1.182 | 0.66 |
| 21_L | 46_S | 1.181 | 0.66 |
| 33_A | 72_V | 1.167 | 0.65 |
| 23_I | 36_I | 1.156 | 0.64 |
| 28_D | 64_I | 1.142 | 0.62 |
| 37_F | 46_S | 1.130 | 0.61 |
| 33_A | 50_H | 1.129 | 0.61 |
| 39_E | 75_H | 1.125 | 0.60 |
| 28_D | 69_D | 1.118 | 0.60 |
| 7_S | 10_L | 1.115 | 0.59 |
| 21_L | 74_L | 1.113 | 0.59 |
| 40_G | 44_G | 1.066 | 0.54 |
| 42_F | 45_E | 1.051 | 0.53 |
| 67_P | 80_V | 1.049 | 0.52 |
| 18_H | 81_G | 1.041 | 0.52 |
| 49_V | 80_V | 1.029 | 0.50 |
| 32_R | 66_P | 1.014 | 0.49 |
| 19_A | 50_H | 1.003 | 0.48 |
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 | |
| 1lnsA | 1 | 0.6744 | 3.3 | 0.922 | Contact Map |
| 2mniA | 1 | 0.4186 | 2.5 | 0.926 | Contact Map |
| 3zrhA | 1 | 0.8953 | 2.4 | 0.927 | Contact Map |
| 4acqA | 4 | 0.907 | 2 | 0.93 | Contact Map |
| 3efoB | 1 | 0.9419 | 2 | 0.931 | Contact Map |
| 3zjeA | 2 | 0.8837 | 1.9 | 0.931 | Contact Map |
| 3eh2A | 3 | 0.9419 | 1.9 | 0.931 | Contact Map |
| 3hs8A | 1 | 0.4419 | 1.8 | 0.932 | Contact Map |
| 4ckbA | 2 | 0.9884 | 1.7 | 0.933 | Contact Map |
| 2pn5A | 1 | 0.9302 | 1.6 | 0.934 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)