| T0836 30-204 |
| ID: | 1405651922 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 175 (173) | ||
| Sequences: | 630 (262.9) | ||
| Seq/Len: | 3.642 | ||
| Nf(neff/√len): | 20.0 |
Jackhmmer Results: (2014_04_16)
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: 3.642).
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 |
| 21_G | 66_A | 2.207 | 1.00 |
| 33_F | 62_F | 1.922 | 1.00 |
| 115_V | 119_N | 1.901 | 1.00 |
| 32_N | 36_I | 1.756 | 0.99 |
| 151_L | 154_R | 1.690 | 0.99 |
| 125_W | 129_K | 1.643 | 0.99 |
| 18_V | 21_G | 1.600 | 0.98 |
| 92_A | 95_Y | 1.599 | 0.98 |
| 64_W | 67_L | 1.589 | 0.98 |
| 149_A | 154_R | 1.570 | 0.98 |
| 62_F | 65_A | 1.562 | 0.98 |
| 127_N | 131_A | 1.500 | 0.97 |
| 150_M | 154_R | 1.495 | 0.97 |
| 33_F | 36_I | 1.484 | 0.97 |
| 33_F | 60_F | 1.475 | 0.97 |
| 147_K | 151_L | 1.461 | 0.96 |
| 154_R | 173_L | 1.409 | 0.95 |
| 66_A | 69_T | 1.394 | 0.95 |
| 134_I | 168_A | 1.376 | 0.94 |
| 138_D | 141_A | 1.362 | 0.94 |
| 127_N | 145_A | 1.331 | 0.93 |
| 32_N | 35_Q | 1.325 | 0.93 |
| 4_H | 41_Q | 1.316 | 0.93 |
| 9_F | 13_F | 1.312 | 0.92 |
| 70_W | 114_T | 1.312 | 0.92 |
| 144_K | 148_T | 1.307 | 0.92 |
| 130_I | 133_G | 1.295 | 0.92 |
| 134_I | 139_A | 1.290 | 0.92 |
| 117_F | 168_A | 1.289 | 0.92 |
| 20_F | 68_A | 1.271 | 0.91 |
| 125_W | 149_A | 1.269 | 0.91 |
| 37_R | 46_L | 1.261 | 0.90 |
| 131_A | 145_A | 1.260 | 0.90 |
| 127_N | 148_T | 1.256 | 0.90 |
| 16_L | 72_M | 1.238 | 0.89 |
| 42_I | 46_L | 1.234 | 0.89 |
| 43_P | 47_K | 1.223 | 0.88 |
| 145_A | 159_L | 1.220 | 0.88 |
| 131_A | 154_R | 1.216 | 0.88 |
| 91_L | 95_Y | 1.216 | 0.88 |
| 82_Y | 107_G | 1.204 | 0.87 |
| 127_N | 157_T | 1.202 | 0.87 |
| 40_P | 46_L | 1.200 | 0.87 |
| 71_V | 75_L | 1.192 | 0.87 |
| 130_I | 145_A | 1.191 | 0.87 |
| 41_Q | 110_M | 1.170 | 0.85 |
| 131_A | 135_V | 1.151 | 0.84 |
| 55_A | 116_M | 1.142 | 0.83 |
| 36_I | 44_A | 1.136 | 0.83 |
| 27_L | 65_A | 1.121 | 0.82 |
| 33_F | 37_R | 1.113 | 0.81 |
| 131_A | 136_E | 1.110 | 0.81 |
| 27_L | 62_F | 1.107 | 0.81 |
| 39_M | 49_A | 1.106 | 0.81 |
| 118_F | 122_V | 1.101 | 0.80 |
| 125_W | 151_L | 1.100 | 0.80 |
| 4_H | 32_N | 1.099 | 0.80 |
| 25_I | 45_E | 1.094 | 0.80 |
| 33_F | 45_E | 1.094 | 0.80 |
| 43_P | 46_L | 1.080 | 0.78 |
| 46_L | 53_Y | 1.077 | 0.78 |
| 135_V | 151_L | 1.073 | 0.78 |
| 32_N | 41_Q | 1.072 | 0.78 |
| 123_F | 127_N | 1.071 | 0.78 |
| 3_G | 116_M | 1.071 | 0.78 |
| 149_A | 159_L | 1.071 | 0.78 |
| 32_N | 44_A | 1.069 | 0.77 |
| 27_L | 58_A | 1.069 | 0.77 |
| 144_K | 147_K | 1.068 | 0.77 |
| 113_A | 117_F | 1.066 | 0.77 |
| 127_N | 149_A | 1.057 | 0.76 |
| 121_W | 160_S | 1.055 | 0.76 |
| 130_I | 137_A | 1.054 | 0.76 |
| 99_V | 102_G | 1.048 | 0.75 |
| 111_W | 115_V | 1.047 | 0.75 |
| 42_I | 45_E | 1.042 | 0.75 |
| 41_Q | 45_E | 1.040 | 0.75 |
| 52_K | 55_A | 1.037 | 0.74 |
| 36_I | 39_M | 1.030 | 0.74 |
| 39_M | 58_A | 1.029 | 0.73 |
| 9_F | 12_I | 1.029 | 0.73 |
| 137_A | 144_K | 1.027 | 0.73 |
| 158_L | 165_A | 1.026 | 0.73 |
| 32_N | 37_R | 1.025 | 0.73 |
| 32_N | 39_M | 1.020 | 0.73 |
| 6_A | 32_N | 1.018 | 0.72 |
| 142_K | 145_A | 1.017 | 0.72 |
| 93_G | 97_P | 1.008 | 0.71 |
| 147_K | 159_L | 1.006 | 0.71 |
| 42_I | 49_A | 1.005 | 0.71 |
| 13_F | 80_R | 1.005 | 0.71 |
| 148_T | 159_L | 1.001 | 0.71 |
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 | |
| 2qzuA | 1 | 0.3886 | 3.4 | 0.971 | Contact Map |
| 2b34A | 8 | 0.32 | 3 | 0.972 | Contact Map |
| 2kluA | 1 | 0.3657 | 2.9 | 0.972 | Contact Map |
| 3b5qA | 2 | 0.3429 | 2.6 | 0.973 | Contact Map |
| 1c1yB | 1 | 0.3143 | 2.2 | 0.973 | Contact Map |
| 1b4uB | 2 | 0.3371 | 1.9 | 0.975 | Contact Map |
| 3wraA | 2 | 0.3371 | 1.8 | 0.975 | Contact Map |
| 1ifpA | 1 | 0.1714 | 1.7 | 0.975 | Contact Map |
| 1u6hB | 1 | 0.1371 | 1.6 | 0.975 | Contact Map |
| 3ed4A | 4 | 0.3771 | 1.6 | 0.975 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)