| O27021_METTH |
| ID: | 1418315559 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 111 (100) | ||
| Sequences: | 464 (352.3) | ||
| Seq/Len: | 4.640 | ||
| Nf(neff/√len): | 35.2 |
HHblits Results: (2013_03)
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: 4.640).
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 |
| 38_R | 106_I | 2.913 | 1.00 |
| 88_E | 91_K | 2.025 | 1.00 |
| 10_V | 19_S | 1.649 | 0.99 |
| 48_A | 51_E | 1.590 | 0.99 |
| 65_I | 83_V | 1.581 | 0.99 |
| 86_T | 105_A | 1.574 | 0.99 |
| 6_R | 9_S | 1.569 | 0.99 |
| 17_Y | 21_I | 1.567 | 0.99 |
| 42_G | 46_V | 1.541 | 0.99 |
| 38_R | 94_N | 1.540 | 0.99 |
| 84_L | 88_E | 1.433 | 0.97 |
| 11_T | 16_E | 1.428 | 0.97 |
| 24_H | 104_A | 1.413 | 0.97 |
| 54_E | 57_E | 1.361 | 0.96 |
| 12_Y | 21_I | 1.342 | 0.96 |
| 14_G | 39_R | 1.341 | 0.96 |
| 20_D | 39_R | 1.340 | 0.96 |
| 84_L | 91_K | 1.337 | 0.96 |
| 94_N | 106_I | 1.326 | 0.95 |
| 92_R | 101_R | 1.308 | 0.95 |
| 38_R | 104_A | 1.288 | 0.94 |
| 80_D | 91_K | 1.281 | 0.94 |
| 25_V | 97_R | 1.267 | 0.94 |
| 53_E | 57_E | 1.261 | 0.94 |
| 65_I | 75_T | 1.251 | 0.93 |
| 94_N | 104_A | 1.239 | 0.93 |
| 82_T | 99_A | 1.223 | 0.92 |
| 21_I | 28_S | 1.217 | 0.92 |
| 55_L | 77_F | 1.199 | 0.91 |
| 26_D | 102_R | 1.192 | 0.91 |
| 64_I | 105_A | 1.192 | 0.91 |
| 42_G | 45_H | 1.178 | 0.90 |
| 3_S | 14_G | 1.174 | 0.90 |
| 29_V | 60_P | 1.159 | 0.89 |
| 50_E | 53_E | 1.111 | 0.86 |
| 84_L | 92_R | 1.100 | 0.86 |
| 11_T | 87_C | 1.096 | 0.85 |
| 80_D | 84_L | 1.094 | 0.85 |
| 68_G | 86_T | 1.087 | 0.85 |
| 47_M | 51_E | 1.077 | 0.84 |
| 23_V | 90_I | 1.071 | 0.83 |
| 63_I | 106_I | 1.071 | 0.83 |
| 20_D | 86_T | 1.069 | 0.83 |
| 22_V | 104_A | 1.065 | 0.83 |
| 12_Y | 15_R | 1.064 | 0.83 |
| 19_S | 53_E | 1.061 | 0.83 |
| 8_G | 86_T | 1.056 | 0.82 |
| 3_S | 11_T | 1.053 | 0.82 |
| 89_A | 107_I | 1.049 | 0.82 |
| 82_T | 96_E | 1.047 | 0.81 |
| 55_L | 63_I | 1.044 | 0.81 |
| 82_T | 101_R | 1.043 | 0.81 |
| 9_S | 16_E | 1.042 | 0.81 |
| 92_R | 99_A | 1.034 | 0.80 |
| 47_M | 52_L | 1.031 | 0.80 |
| 88_E | 92_R | 1.023 | 0.79 |
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 | |
| 1ihnA | 2 | 1 | 100 | 0.043 | Contact Map |
| 2cyjA | 1 | 0.982 | 100 | 0.114 | Contact Map |
| 2ab1A | 2 | 0.9459 | 100 | 0.186 | Contact Map |
| 2gm2A | 1 | 0.9279 | 100 | 0.263 | Contact Map |
| 2fvtA | 1 | 0.9189 | 100 | 0.287 | Contact Map |
| 3cpkA | 1 | 0.9189 | 100 | 0.29 | Contact Map |
| 2fi9A | 1 | 0.9099 | 100 | 0.308 | Contact Map |
| 2v4wA | 4 | 0.7297 | 28.8 | 0.916 | Contact Map |
| 1xpmA | 4 | 0.7027 | 24.8 | 0.919 | Contact Map |
| 2p8uA | 2 | 0.7838 | 21.4 | 0.921 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)