| 1eaza |
| ID: | 1492887895 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 103 (100) | ||
| Sequences: | 6991 (4468.6) | ||
| Seq/Len: | 69.910 | ||
| Nf(neff/√len): | 446.9 |
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: 69.910).
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 |
| 5_K | 90_S | 4.738 | 1.00 |
| 9_C | 24_F | 3.311 | 1.00 |
| 24_F | 33_Y | 2.769 | 1.00 |
| 9_C | 82_A | 2.539 | 1.00 |
| 33_Y | 44_R | 2.535 | 1.00 |
| 5_K | 94_A | 2.326 | 1.00 |
| 24_F | 80_V | 2.154 | 1.00 |
| 69_F | 92_I | 2.106 | 1.00 |
| 84_S | 87_E | 2.069 | 1.00 |
| 82_A | 88_M | 2.024 | 1.00 |
| 11_K | 33_Y | 1.998 | 1.00 |
| 56_E | 88_M | 1.989 | 1.00 |
| 67_N | 85_P | 1.808 | 1.00 |
| 55_Q | 70_E | 1.784 | 1.00 |
| 91_W | 95_V | 1.756 | 1.00 |
| 25_Q | 34_F | 1.705 | 1.00 |
| 8_Y | 21_R | 1.702 | 1.00 |
| 4_I | 27_D | 1.641 | 1.00 |
| 68_L | 81_Q | 1.640 | 1.00 |
| 67_N | 88_M | 1.637 | 1.00 |
| 26_L | 94_A | 1.547 | 1.00 |
| 7_G | 11_K | 1.543 | 1.00 |
| 22_R | 33_Y | 1.534 | 1.00 |
| 85_P | 89_H | 1.521 | 1.00 |
| 86_E | 90_S | 1.519 | 1.00 |
| 67_N | 81_Q | 1.394 | 0.99 |
| 6_A | 25_Q | 1.360 | 0.99 |
| 27_D | 32_G | 1.341 | 0.99 |
| 30_T | 47_P | 1.328 | 0.99 |
| 83_D | 87_E | 1.324 | 0.99 |
| 13_G | 18_N | 1.306 | 0.99 |
| 70_E | 79_Y | 1.276 | 0.99 |
| 88_M | 92_I | 1.259 | 0.99 |
| 34_F | 42_P | 1.250 | 0.99 |
| 8_Y | 23_Y | 1.235 | 0.98 |
| 10_V | 81_Q | 1.197 | 0.98 |
| 85_P | 88_M | 1.176 | 0.98 |
| 48_L | 51_V | 1.173 | 0.98 |
| 13_G | 16_M | 1.163 | 0.97 |
| 89_H | 93_K | 1.155 | 0.97 |
| 90_S | 94_A | 1.153 | 0.97 |
| 24_F | 31_I | 1.144 | 0.97 |
| 70_E | 77_T | 1.127 | 0.97 |
| 8_Y | 37_E | 1.123 | 0.97 |
| 36_S | 39_E | 1.070 | 0.95 |
| 4_I | 28_E | 1.064 | 0.95 |
| 10_V | 21_R | 1.058 | 0.95 |
| 7_G | 87_E | 1.053 | 0.95 |
| 54_V | 99_I | 1.039 | 0.94 |
| 19_W | 68_L | 1.029 | 0.94 |
| 96_S | 100_V | 1.023 | 0.93 |
| 33_Y | 80_V | 1.021 | 0.93 |
| 11_K | 22_R | 1.010 | 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 | |
| 2d9zA | 1 | 1 | 99.6 | -0.011 | Contact Map |
| 2coaA | 1 | 1 | 99.6 | 0.01 | Contact Map |
| 2r09A | 2 | 0.9612 | 99.6 | 0.02 | Contact Map |
| 1v5pA | 1 | 1 | 99.6 | 0.023 | Contact Map |
| 1dynA | 2 | 0.9806 | 99.6 | 0.024 | Contact Map |
| 1v89A | 1 | 0.9903 | 99.5 | 0.03 | Contact Map |
| 1wi1A | 1 | 0.9903 | 99.5 | 0.03 | Contact Map |
| 3ljuX | 1 | 1 | 99.5 | 0.03 | Contact Map |
| 4h6yA | 2 | 0.8641 | 99.5 | 0.031 | Contact Map |
| 1eazA | 1 | 1 | 99.5 | 0.033 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)