| ProX |
| ID: | 1457616829 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 75 (74) | ||
| Sequences: | 317 (186.2) | ||
| Seq/Len: | 4.284 | ||
| Nf(neff/√len): | 21.6 |
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: 4.284).
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 |
| 36_P | 40_V | 2.320 | 1.00 |
| 39_T | 42_I | 2.230 | 1.00 |
| 56_L | 72_L | 1.994 | 1.00 |
| 20_A | 41_A | 1.983 | 1.00 |
| 3_L | 18_I | 1.953 | 1.00 |
| 20_A | 23_L | 1.719 | 0.99 |
| 13_I | 56_L | 1.652 | 0.99 |
| 68_D | 71_A | 1.546 | 0.98 |
| 61_S | 64_P | 1.500 | 0.98 |
| 24_L | 56_L | 1.405 | 0.97 |
| 5_T | 17_A | 1.394 | 0.96 |
| 32_K | 47_L | 1.389 | 0.96 |
| 56_L | 66_T | 1.373 | 0.96 |
| 4_K | 14_S | 1.372 | 0.96 |
| 36_P | 44_E | 1.363 | 0.96 |
| 36_P | 49_S | 1.356 | 0.95 |
| 50_K | 73_A | 1.345 | 0.95 |
| 18_I | 58_V | 1.261 | 0.93 |
| 41_A | 49_S | 1.236 | 0.92 |
| 41_A | 44_E | 1.225 | 0.91 |
| 38_Q | 61_S | 1.207 | 0.90 |
| 14_S | 45_D | 1.195 | 0.90 |
| 37_A | 44_E | 1.183 | 0.89 |
| 4_K | 45_D | 1.181 | 0.89 |
| 60_K | 64_P | 1.174 | 0.89 |
| 22_C | 35_L | 1.174 | 0.89 |
| 29_A | 62_F | 1.155 | 0.88 |
| 35_L | 44_E | 1.129 | 0.86 |
| 5_T | 8_L | 1.105 | 0.84 |
| 1_M | 32_K | 1.103 | 0.84 |
| 37_A | 74_K | 1.096 | 0.84 |
| 25_T | 57_M | 1.095 | 0.83 |
| 41_A | 51_I | 1.061 | 0.81 |
| 18_I | 40_V | 1.053 | 0.80 |
| 43_D | 72_L | 1.038 | 0.79 |
| 35_L | 73_A | 1.005 | 0.76 |
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 | |
| 4btpA | 10 | 0.1333 | 1.1 | 0.952 | Contact Map |
| 3zmrA | 2 | 0.3333 | 0.9 | 0.955 | Contact Map |
| 4ivgA | 1 | 0.4 | 0.8 | 0.956 | Contact Map |
| 2pigA | 2 | 0.56 | 0.8 | 0.956 | Contact Map |
| 3orfA | 4 | 0.32 | 0.7 | 0.958 | Contact Map |
| 1v2xA | 1 | 0.5867 | 0.7 | 0.958 | Contact Map |
| 4kmsA | 2 | 0.3733 | 0.7 | 0.958 | Contact Map |
| 1j3eA | 1 | 0.52 | 0.7 | 0.958 | Contact Map |
| 3sk7A | 2 | 0.52 | 0.7 | 0.958 | Contact Map |
| 2x4gA | 1 | 0.32 | 0.6 | 0.959 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)