| treated data |
| ID: | 1458045095 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 99 (99) | ||
| Sequences: | 3805 (260) | ||
| Seq/Len: | 38.434 | ||
| Nf(neff/√len): | 26.1 |
HHblits Results: (2015_06)
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: 38.434).
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 |
| 32_V | 47_I | 3.945 | 1.00 |
| 54_I | 82_V | 3.526 | 1.00 |
| 30_D | 88_N | 2.645 | 1.00 |
| 69_K | 89_M | 2.577 | 1.00 |
| 16_G | 63_L | 1.840 | 1.00 |
| 27_G | 31_T | 1.761 | 1.00 |
| 25_D | 49_G | 1.651 | 1.00 |
| 10_L | 54_I | 1.645 | 1.00 |
| 73_G | 89_M | 1.631 | 1.00 |
| 15_V | 19_I | 1.631 | 1.00 |
| 36_I | 77_V | 1.623 | 1.00 |
| 13_I | 33_L | 1.488 | 1.00 |
| 12_S | 19_I | 1.475 | 1.00 |
| 4_T | 7_Q | 1.447 | 1.00 |
| 46_M | 55_K | 1.440 | 1.00 |
| 15_V | 33_L | 1.437 | 1.00 |
| 65_E | 68_G | 1.436 | 1.00 |
| 71_A | 89_M | 1.421 | 1.00 |
| 14_K | 19_I | 1.411 | 1.00 |
| 26_T | 31_T | 1.330 | 0.99 |
| 92_Q | 95_C | 1.326 | 0.99 |
| 62_I | 71_A | 1.322 | 0.99 |
| 24_L | 90_L | 1.317 | 0.99 |
| 87_R | 90_L | 1.309 | 0.99 |
| 20_K | 33_L | 1.304 | 0.99 |
| 23_L | 26_T | 1.298 | 0.99 |
| 11_V | 16_G | 1.270 | 0.99 |
| 61_Q | 72_I | 1.228 | 0.98 |
| 86_G | 94_G | 1.228 | 0.98 |
| 6_W | 9_P | 1.207 | 0.98 |
| 27_G | 86_G | 1.189 | 0.98 |
| 84_I | 90_L | 1.183 | 0.98 |
| 23_L | 29_D | 1.183 | 0.98 |
| 48_G | 54_I | 1.183 | 0.98 |
| 25_D | 87_R | 1.163 | 0.97 |
| 64_I | 89_M | 1.161 | 0.97 |
| 94_G | 97_L | 1.148 | 0.97 |
| 47_I | 66_I | 1.148 | 0.97 |
| 54_I | 90_L | 1.134 | 0.97 |
| 95_C | 99_F | 1.124 | 0.97 |
| 46_M | 84_I | 1.123 | 0.97 |
| 92_Q | 96_T | 1.109 | 0.96 |
| 83_N | 87_R | 1.104 | 0.96 |
| 71_A | 92_Q | 1.078 | 0.95 |
| 2_Q | 5_L | 1.072 | 0.95 |
| 5_L | 9_P | 1.041 | 0.94 |
| 12_S | 15_V | 1.028 | 0.94 |
| 36_I | 69_K | 1.016 | 0.93 |
| 27_G | 49_G | 1.013 | 0.93 |
| 48_G | 51_G | 1.013 | 0.93 |
| 20_K | 70_K | 1.007 | 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 | |
| 3ec0A | 2 | 1 | 100 | 0.054 | Contact Map |
| 3liyA | 6 | 1 | 100 | 0.1 | Contact Map |
| 3ka2A | 1 | 0.9495 | 100 | 0.113 | Contact Map |
| 3sqfA | 2 | 0.8889 | 100 | 0.121 | Contact Map |
| 2rspA | 2 | 0.9293 | 100 | 0.128 | Contact Map |
| 2hs1A | 2 | 1 | 100 | 0.131 | Contact Map |
| 1fmbA | 1 | 0.9798 | 100 | 0.254 | Contact Map |
| 2hahA | 1 | 1 | 99.9 | 0.333 | Contact Map |
| 3slzA | 2 | 0.9697 | 99.9 | 0.394 | Contact Map |
| 2i1aA | 4 | 0.8889 | 98.6 | 0.708 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)