| T22N |
| ID: | 1454577220 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 84 (84) | ||
| Sequences: | 197 (160.7) | ||
| Seq/Len: | 2.345 | ||
| Nf(neff/√len): | 17.5 |
Jackhmmer Results: (2015_08)
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: 2.345).
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 |
| 16_Q | 19_P | 1.909 | 0.99 |
| 78_T | 81_F | 1.785 | 0.98 |
| 72_T | 76_K | 1.598 | 0.96 |
| 49_L | 71_T | 1.569 | 0.95 |
| 46_T | 50_Y | 1.493 | 0.93 |
| 47_D | 55_M | 1.437 | 0.91 |
| 37_S | 60_T | 1.433 | 0.91 |
| 34_S | 37_S | 1.410 | 0.90 |
| 50_Y | 53_R | 1.406 | 0.90 |
| 5_T | 42_Q | 1.394 | 0.89 |
| 54_D | 58_P | 1.346 | 0.87 |
| 26_F | 29_T | 1.340 | 0.87 |
| 74_F | 78_T | 1.303 | 0.85 |
| 68_Y | 71_T | 1.300 | 0.84 |
| 36_D | 78_T | 1.258 | 0.82 |
| 4_L | 26_F | 1.239 | 0.80 |
| 15_P | 47_D | 1.238 | 0.80 |
| 12_F | 34_S | 1.206 | 0.78 |
| 8_E | 12_F | 1.199 | 0.77 |
| 49_L | 57_S | 1.193 | 0.77 |
| 39_Y | 78_T | 1.185 | 0.76 |
| 14_Q | 49_L | 1.171 | 0.75 |
| 26_F | 32_E | 1.161 | 0.74 |
| 25_D | 28_D | 1.160 | 0.74 |
| 45_F | 76_K | 1.147 | 0.73 |
| 62_G | 76_K | 1.145 | 0.72 |
| 5_T | 81_F | 1.136 | 0.72 |
| 28_D | 32_E | 1.127 | 0.71 |
| 34_S | 64_F | 1.124 | 0.70 |
| 50_Y | 59_T | 1.114 | 0.69 |
| 60_T | 63_W | 1.109 | 0.69 |
| 34_S | 49_L | 1.102 | 0.68 |
| 42_Q | 68_Y | 1.096 | 0.68 |
| 17_V | 36_D | 1.085 | 0.66 |
| 9_D | 82_A | 1.084 | 0.66 |
| 38_D | 47_D | 1.078 | 0.66 |
| 7_V | 81_F | 1.064 | 0.64 |
| 12_F | 33_I | 1.056 | 0.63 |
| 71_T | 82_A | 1.056 | 0.63 |
| 20_E | 72_T | 1.042 | 0.62 |
| 18_G | 30_D | 1.041 | 0.62 |
| 44_T | 67_K | 1.037 | 0.61 |
| 36_D | 53_R | 1.024 | 0.60 |
| 4_L | 79_L | 1.024 | 0.60 |
| 57_S | 73_N | 1.019 | 0.59 |
| 23_D | 36_D | 1.011 | 0.58 |
| 32_E | 35_V | 1.000 | 0.57 |
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 | |
| 4kblA | 2 | 0 | 34.2 | 0.892 | Contact Map |
| 4fp9B | 4 | 0.1071 | 16 | 0.907 | Contact Map |
| 4athA | 2 | 0.5476 | 11.7 | 0.913 | Contact Map |
| 4gyiA | 1 | 0.1786 | 10.9 | 0.914 | Contact Map |
| 2x24A | 2 | 0.0238 | 6.9 | 0.921 | Contact Map |
| 4csu9 | 1 | 0 | 6.4 | 0.922 | Contact Map |
| 1hloA | 2 | 0.6786 | 6.1 | 0.923 | Contact Map |
| 2o3eA | 1 | 0.9643 | 4.2 | 0.929 | Contact Map |
| 3q2sC | 2 | 0.2976 | 4.1 | 0.929 | Contact Map |
| 2qfaC | 1 | 0.2024 | 3.8 | 0.931 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)