| spo11 |
| ID: | 1497713122 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 98 (81) | ||
| Sequences: | 512 (384.7) | ||
| Seq/Len: | 6.321 | ||
| Nf(neff/√len): | 42.7 |
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: 6.321).
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 |
| 33_I | 90_L | 1.913 | 1.00 |
| 91_K | 98_K | 1.768 | 1.00 |
| 20_S | 32_G | 1.716 | 1.00 |
| 91_K | 94_S | 1.689 | 1.00 |
| 43_P | 55_N | 1.502 | 0.99 |
| 30_I | 82_S | 1.500 | 0.99 |
| 25_A | 62_V | 1.496 | 0.99 |
| 55_N | 58_F | 1.484 | 0.99 |
| 24_A | 72_T | 1.426 | 0.99 |
| 27_E | 93_L | 1.348 | 0.98 |
| 84_Q | 88_L | 1.341 | 0.98 |
| 50_R | 55_N | 1.272 | 0.97 |
| 59_N | 66_I | 1.265 | 0.96 |
| 44_V | 60_H | 1.242 | 0.96 |
| 70_C | 83_A | 1.233 | 0.96 |
| 79_C | 82_S | 1.228 | 0.96 |
| 36_S | 90_L | 1.207 | 0.95 |
| 71_T | 74_K | 1.198 | 0.95 |
| 26_I | 60_H | 1.197 | 0.95 |
| 87_A | 91_K | 1.195 | 0.95 |
| 77_S | 89_M | 1.168 | 0.94 |
| 80_A | 85_K | 1.167 | 0.94 |
| 43_P | 56_I | 1.166 | 0.94 |
| 36_S | 61_L | 1.151 | 0.93 |
| 23_L | 27_E | 1.122 | 0.92 |
| 15_E | 21_Q | 1.120 | 0.92 |
| 46_T | 75_V | 1.120 | 0.92 |
| 32_G | 39_K | 1.115 | 0.92 |
| 78_N | 84_Q | 1.106 | 0.91 |
| 42_A | 79_C | 1.077 | 0.90 |
| 31_Q | 35_E | 1.052 | 0.88 |
| 45_L | 90_L | 1.051 | 0.88 |
| 24_A | 31_Q | 1.043 | 0.88 |
| 15_E | 19_S | 1.043 | 0.88 |
| 31_Q | 48_D | 1.041 | 0.88 |
| 49_N | 74_K | 1.040 | 0.87 |
| 88_L | 94_S | 1.033 | 0.87 |
| 28_R | 40_N | 1.033 | 0.87 |
| 42_A | 86_F | 1.032 | 0.87 |
| 36_S | 41_E | 1.028 | 0.87 |
| 65_Q | 70_C | 1.020 | 0.86 |
| 19_S | 22_V | 1.020 | 0.86 |
| 24_A | 28_R | 1.014 | 0.86 |
| 21_Q | 60_H | 1.004 | 0.85 |
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 | |
| 2zbkA | 4 | 0.6224 | 99.2 | 0.361 | Contact Map |
| 2q2eA | 1 | 0.5204 | 99.1 | 0.392 | Contact Map |
| 4fc9B | 3 | 0.7857 | 9 | 0.879 | Contact Map |
| 1wjwA | 1 | 0.5 | 4.8 | 0.893 | Contact Map |
| 3tvyA | 1 | 0.3367 | 3.1 | 0.903 | Contact Map |
| 4o4aA | 4 | 0.4184 | 2.9 | 0.904 | Contact Map |
| 4pn8A | 10 | 0.2449 | 2.9 | 0.904 | Contact Map |
| 1oscA | 6 | 0.3776 | 2.4 | 0.908 | Contact Map |
| 4rifA | 2 | 0.3673 | 2.4 | 0.908 | Contact Map |
| 4m5dA | 1 | 0.4082 | 2.4 | 0.908 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)