| B8XCH5_C2A |
| ID: | 1485957380 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 150 (134) | ||
| Sequences: | 3452 (2023.6) | ||
| Seq/Len: | 25.761 | ||
| Nf(neff/√len): | 174.8 |
HHblits Results: (2016_02)
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: 25.761).
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 |
| 23_V | 53_T | 4.784 | 1.00 |
| 56_K | 59_D | 2.930 | 1.00 |
| 42_V | 85_I | 2.771 | 1.00 |
| 107_V | 125_F | 2.700 | 1.00 |
| 41_Y | 101_N | 2.416 | 1.00 |
| 38_S | 60_L | 2.404 | 1.00 |
| 25_E | 141_G | 2.135 | 1.00 |
| 82_E | 108_K | 2.116 | 1.00 |
| 25_E | 124_Y | 2.083 | 1.00 |
| 25_E | 63_I | 2.056 | 1.00 |
| 31_P | 38_S | 2.022 | 1.00 |
| 91_K | 102_H | 1.978 | 1.00 |
| 54_S | 66_E | 1.942 | 1.00 |
| 27_R | 139_E | 1.848 | 1.00 |
| 27_R | 124_Y | 1.798 | 1.00 |
| 42_V | 87_V | 1.787 | 1.00 |
| 26_A | 64_W | 1.768 | 1.00 |
| 122_L | 141_G | 1.736 | 1.00 |
| 26_A | 104_L | 1.673 | 1.00 |
| 31_P | 35_Q | 1.672 | 1.00 |
| 23_V | 42_V | 1.648 | 1.00 |
| 87_V | 127_L | 1.640 | 1.00 |
| 22_E | 67_M | 1.632 | 1.00 |
| 20_V | 69_D | 1.614 | 1.00 |
| 51_K | 68_L | 1.527 | 1.00 |
| 22_E | 143_K | 1.497 | 1.00 |
| 124_Y | 141_G | 1.494 | 1.00 |
| 90_D | 101_N | 1.458 | 1.00 |
| 33_D | 38_S | 1.448 | 1.00 |
| 85_I | 142_L | 1.446 | 1.00 |
| 23_V | 44_V | 1.431 | 1.00 |
| 92_R | 98_G | 1.418 | 1.00 |
| 31_P | 60_L | 1.390 | 0.99 |
| 17_R | 146_Y | 1.379 | 0.99 |
| 88_Y | 103_F | 1.377 | 0.99 |
| 36_G | 39_S | 1.368 | 0.99 |
| 39_S | 60_L | 1.353 | 0.99 |
| 45_D | 86_E | 1.350 | 0.99 |
| 44_V | 83_L | 1.275 | 0.99 |
| 22_E | 65_N | 1.270 | 0.99 |
| 28_N | 61_N | 1.246 | 0.98 |
| 103_F | 130_K | 1.212 | 0.98 |
| 37_S | 58_R | 1.188 | 0.98 |
| 18_K | 71_A | 1.179 | 0.98 |
| 46_F | 72_V | 1.177 | 0.98 |
| 40_A | 59_D | 1.171 | 0.98 |
| 44_V | 68_L | 1.171 | 0.98 |
| 21_V | 70_F | 1.154 | 0.97 |
| 84_D | 108_K | 1.145 | 0.97 |
| 124_Y | 139_E | 1.142 | 0.97 |
| 82_E | 110_Y | 1.141 | 0.97 |
| 86_E | 103_F | 1.123 | 0.97 |
| 86_E | 106_R | 1.116 | 0.96 |
| 32_K | 104_L | 1.114 | 0.96 |
| 32_K | 38_S | 1.103 | 0.96 |
| 85_I | 140_I | 1.102 | 0.96 |
| 124_Y | 127_L | 1.101 | 0.96 |
| 45_D | 50_K | 1.094 | 0.96 |
| 38_S | 104_L | 1.094 | 0.96 |
| 24_V | 143_K | 1.069 | 0.95 |
| 59_D | 62_P | 1.065 | 0.95 |
| 19_L | 144_I | 1.061 | 0.95 |
| 33_D | 102_H | 1.049 | 0.94 |
| 31_P | 37_S | 1.005 | 0.93 |
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 | |
| 2r83A | 2 | 0.9533 | 99.9 | 0.252 | Contact Map |
| 1dqvA | 1 | 0.96 | 99.9 | 0.256 | Contact Map |
| 3m7fB | 1 | 0.8 | 99.9 | 0.272 | Contact Map |
| 2ep6A | 1 | 0.8867 | 99.9 | 0.275 | Contact Map |
| 3l9bA | 1 | 0.82 | 99.9 | 0.278 | Contact Map |
| 1wfjA | 1 | 0.8733 | 99.8 | 0.286 | Contact Map |
| 3b7yA | 2 | 0.9133 | 99.8 | 0.29 | Contact Map |
| 4npjA | 2 | 0.9 | 99.8 | 0.294 | Contact Map |
| 3jzyA | 1 | 0.8067 | 99.8 | 0.296 | Contact Map |
| 2nq3A | 1 | 0.8467 | 99.8 | 0.297 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)