| wspB |
| ID: | 1434471878 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 171 (143) | ||
| Sequences: | 2722 (2042.6) | ||
| Seq/Len: | 19.035 | ||
| Nf(neff/√len): | 170.8 |
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: 19.035).
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 |
| 26_R | 142_G | 3.719 | 1.00 |
| 121_R | 138_E | 3.145 | 1.00 |
| 36_E | 60_R | 2.981 | 1.00 |
| 86_I | 103_G | 2.855 | 1.00 |
| 54_A | 68_D | 2.796 | 1.00 |
| 116_E | 119_A | 2.337 | 1.00 |
| 33_E | 150_E | 2.314 | 1.00 |
| 115_C | 137_Y | 2.271 | 1.00 |
| 120_F | 135_P | 2.254 | 1.00 |
| 66_V | 86_I | 2.077 | 1.00 |
| 40_L | 43_L | 2.064 | 1.00 |
| 54_A | 105_I | 2.040 | 1.00 |
| 21_R | 108_Q | 1.945 | 1.00 |
| 58_S | 61_G | 1.873 | 1.00 |
| 35_V | 90_E | 1.868 | 1.00 |
| 58_S | 63_L | 1.847 | 1.00 |
| 16_L | 114_R | 1.839 | 1.00 |
| 106_L | 109_A | 1.754 | 1.00 |
| 148_R | 151_A | 1.711 | 1.00 |
| 89_V | 104_L | 1.568 | 1.00 |
| 139_G | 142_G | 1.559 | 1.00 |
| 20_F | 87_V | 1.531 | 1.00 |
| 69_L | 152_L | 1.511 | 1.00 |
| 70_C | 107_E | 1.487 | 1.00 |
| 66_V | 103_G | 1.469 | 1.00 |
| 57_F | 66_V | 1.432 | 1.00 |
| 40_L | 105_I | 1.427 | 1.00 |
| 86_I | 90_E | 1.425 | 1.00 |
| 85_R | 90_E | 1.414 | 1.00 |
| 18_L | 37_V | 1.410 | 1.00 |
| 21_R | 110_T | 1.404 | 0.99 |
| 64_V | 88_L | 1.368 | 0.99 |
| 43_L | 66_V | 1.361 | 0.99 |
| 62_V | 101_W | 1.320 | 0.99 |
| 131_R | 151_A | 1.314 | 0.99 |
| 17_F | 146_W | 1.286 | 0.99 |
| 15_K | 30_D | 1.249 | 0.99 |
| 154_P | 157_V | 1.240 | 0.98 |
| 17_F | 115_C | 1.232 | 0.98 |
| 30_D | 33_E | 1.207 | 0.98 |
| 134_G | 148_R | 1.206 | 0.98 |
| 26_R | 110_T | 1.182 | 0.98 |
| 57_F | 86_I | 1.177 | 0.98 |
| 16_L | 111_D | 1.171 | 0.98 |
| 21_R | 24_G | 1.169 | 0.97 |
| 35_V | 101_W | 1.157 | 0.97 |
| 54_A | 72_M | 1.152 | 0.97 |
| 29_L | 149_V | 1.150 | 0.97 |
| 84_T | 105_I | 1.145 | 0.97 |
| 119_A | 139_G | 1.142 | 0.97 |
| 28_A | 146_W | 1.133 | 0.97 |
| 19_L | 113_L | 1.132 | 0.97 |
| 136_V | 143_L | 1.117 | 0.96 |
| 71_A | 74_F | 1.116 | 0.96 |
| 53_V | 65_P | 1.105 | 0.96 |
| 35_V | 62_V | 1.094 | 0.96 |
| 19_L | 26_R | 1.083 | 0.96 |
| 30_D | 134_G | 1.064 | 0.95 |
| 28_A | 137_Y | 1.057 | 0.95 |
| 64_V | 101_W | 1.049 | 0.94 |
| 33_E | 149_V | 1.046 | 0.94 |
| 19_L | 111_D | 1.041 | 0.94 |
| 44_K | 63_L | 1.039 | 0.94 |
| 104_L | 149_V | 1.024 | 0.93 |
| 15_K | 117_P | 1.024 | 0.93 |
| 120_F | 146_W | 1.021 | 0.93 |
| 156_E | 161_L | 1.021 | 0.93 |
| 54_A | 81_R | 1.004 | 0.93 |
| 16_L | 31_A | 1.001 | 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 | |
| 2qdlA | 2 | 0.8889 | 100 | 0.327 | Contact Map |
| 2ho9A | 1 | 0.9474 | 100 | 0.339 | Contact Map |
| 4jpbW | 1 | 0.8129 | 99.9 | 0.363 | Contact Map |
| 1b3qA | 2 | 0.807 | 99.3 | 0.666 | Contact Map |
| 1sg5A | 1 | 0.2924 | 3.4 | 0.949 | Contact Map |
| 4giuA | 2 | 0.8655 | 2.8 | 0.951 | Contact Map |
| 3c9xA | 1 | 0.4561 | 2.7 | 0.951 | Contact Map |
| 1oewA | 1 | 0.4561 | 2.5 | 0.952 | Contact Map |
| 1izdA | 1 | 0.4912 | 2.2 | 0.953 | Contact Map |
| 4o0aA | 1 | 0.6959 | 2.1 | 0.954 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)