| 1x91 |
| ID: | 1453737289 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 153 (149) | ||
| Sequences: | 2377 (1797.4) | ||
| Seq/Len: | 15.953 | ||
| Nf(neff/√len): | 147.2 |
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: 15.953).
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 |
| 74_S | 118_D | 3.327 | 1.00 |
| 106_S | 144_L | 2.767 | 1.00 |
| 12_C | 21_C | 2.402 | 1.00 |
| 97_D | 100_G | 2.330 | 1.00 |
| 79_Y | 133_S | 2.168 | 1.00 |
| 100_G | 104_K | 2.037 | 1.00 |
| 55_K | 132_N | 1.984 | 1.00 |
| 78_E | 114_T | 1.919 | 1.00 |
| 33_N | 36_A | 1.890 | 1.00 |
| 11_I | 146_I | 1.879 | 1.00 |
| 102_N | 148_N | 1.878 | 1.00 |
| 24_F | 44_S | 1.800 | 1.00 |
| 134_K | 138_N | 1.781 | 1.00 |
| 65_D | 68_S | 1.692 | 1.00 |
| 103_M | 110_D | 1.691 | 1.00 |
| 20_F | 138_N | 1.687 | 1.00 |
| 74_S | 78_E | 1.576 | 1.00 |
| 142_I | 146_I | 1.524 | 1.00 |
| 42_L | 105_V | 1.502 | 1.00 |
| 92_H | 100_G | 1.496 | 1.00 |
| 103_M | 144_L | 1.477 | 1.00 |
| 141_G | 144_L | 1.469 | 1.00 |
| 82_A | 111_G | 1.443 | 1.00 |
| 141_G | 145_V | 1.401 | 0.99 |
| 49_A | 136_I | 1.396 | 0.99 |
| 24_F | 142_I | 1.386 | 0.99 |
| 70_L | 74_S | 1.364 | 0.99 |
| 71_A | 118_D | 1.348 | 0.99 |
| 114_T | 118_D | 1.343 | 0.99 |
| 48_R | 139_L | 1.315 | 0.99 |
| 8_M | 24_F | 1.290 | 0.99 |
| 107_A | 144_L | 1.283 | 0.99 |
| 15_T | 141_G | 1.280 | 0.99 |
| 113_D | 117_D | 1.242 | 0.98 |
| 101_M | 147_S | 1.239 | 0.98 |
| 52_T | 56_L | 1.236 | 0.98 |
| 108_A | 140_C | 1.232 | 0.98 |
| 45_T | 49_A | 1.204 | 0.98 |
| 7_E | 11_I | 1.203 | 0.98 |
| 81_S | 111_G | 1.200 | 0.98 |
| 106_S | 109_L | 1.199 | 0.98 |
| 41_T | 143_A | 1.193 | 0.98 |
| 110_D | 118_D | 1.187 | 0.98 |
| 25_L | 37_L | 1.186 | 0.98 |
| 17_N | 141_G | 1.180 | 0.98 |
| 74_S | 114_T | 1.165 | 0.97 |
| 106_S | 110_D | 1.158 | 0.97 |
| 21_C | 25_L | 1.152 | 0.97 |
| 15_T | 18_P | 1.147 | 0.97 |
| 77_D | 114_T | 1.136 | 0.97 |
| 82_A | 108_A | 1.135 | 0.97 |
| 71_A | 119_V | 1.134 | 0.97 |
| 106_S | 114_T | 1.126 | 0.97 |
| 88_E | 104_K | 1.122 | 0.97 |
| 65_D | 69_K | 1.114 | 0.96 |
| 116_L | 130_V | 1.114 | 0.96 |
| 103_M | 106_S | 1.092 | 0.96 |
| 89_A | 104_K | 1.087 | 0.96 |
| 85_N | 104_K | 1.086 | 0.96 |
| 7_E | 14_K | 1.081 | 0.95 |
| 110_D | 114_T | 1.077 | 0.95 |
| 18_P | 22_L | 1.070 | 0.95 |
| 58_S | 62_G | 1.069 | 0.95 |
| 100_G | 103_M | 1.057 | 0.95 |
| 20_F | 136_I | 1.051 | 0.94 |
| 110_D | 144_L | 1.039 | 0.94 |
| 9_S | 13_D | 1.037 | 0.94 |
| 41_T | 142_I | 1.036 | 0.94 |
| 9_S | 22_L | 1.030 | 0.94 |
| 85_N | 111_G | 1.025 | 0.93 |
| 97_D | 108_A | 1.013 | 0.93 |
| 82_A | 137_K | 1.010 | 0.93 |
| 15_T | 142_I | 1.008 | 0.93 |
| 41_T | 45_T | 1.000 | 0.92 |
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 | |
| 1x91A | 1 | 0.9739 | 99.9 | 0.064 | Contact Map |
| 1xg2B | 1 | 0.9739 | 99.9 | 0.113 | Contact Map |
| 2cj4A | 2 | 0.9412 | 99.9 | 0.13 | Contact Map |
| 3avxA | 1 | 0.5882 | 8.5 | 0.909 | Contact Map |
| 1xb2B | 1 | 0.5882 | 6.4 | 0.914 | Contact Map |
| 4pc3C | 2 | 0 | 5.7 | 0.916 | Contact Map |
| 2xs1A | 1 | 0.9673 | 5.6 | 0.916 | Contact Map |
| 2zanA | 1 | 0 | 4.8 | 0.919 | Contact Map |
| 1aipC | 4 | 0.5752 | 4.7 | 0.919 | Contact Map |
| 4w8pA | 1 | 0.6013 | 3.9 | 0.922 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)