| FKRP-281-495 |
| ID: | 1482455526 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 215 (164) | ||
| Sequences: | 1056 (936.9) | ||
| Seq/Len: | 6.439 | ||
| Nf(neff/√len): | 73.2 |
Jackhmmer Results: (2016_04)
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: 6.439).
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 |
| 50_V | 54_E | 2.903 | 1.00 |
| 172_L | 181_A | 2.500 | 1.00 |
| 171_P | 180_Q | 2.318 | 1.00 |
| 69_G | 77_I | 2.254 | 1.00 |
| 184_N | 187_R | 2.186 | 1.00 |
| 61_W | 86_G | 2.135 | 1.00 |
| 62_L | 179_A | 2.045 | 1.00 |
| 65_G | 82_D | 2.026 | 1.00 |
| 166_L | 169_L | 1.974 | 1.00 |
| 63_E | 86_G | 1.937 | 1.00 |
| 171_P | 178_V | 1.912 | 1.00 |
| 73_H | 77_I | 1.864 | 1.00 |
| 70_A | 172_L | 1.814 | 1.00 |
| 49_V | 53_L | 1.805 | 1.00 |
| 50_V | 60_Y | 1.788 | 1.00 |
| 49_V | 85_L | 1.766 | 1.00 |
| 71_A | 185_Y | 1.715 | 1.00 |
| 82_D | 136_D | 1.704 | 1.00 |
| 72_R | 77_I | 1.694 | 1.00 |
| 186_R | 190_E | 1.661 | 1.00 |
| 173_P | 176_G | 1.564 | 0.99 |
| 46_A | 83_V | 1.564 | 0.99 |
| 73_H | 78_P | 1.563 | 0.99 |
| 168_P | 183_N | 1.555 | 0.99 |
| 58_V | 87_I | 1.497 | 0.99 |
| 119_E | 122_F | 1.447 | 0.99 |
| 61_W | 169_L | 1.444 | 0.99 |
| 65_G | 69_G | 1.441 | 0.99 |
| 51_G | 55_A | 1.435 | 0.99 |
| 65_G | 84_D | 1.424 | 0.99 |
| 48_Y | 51_G | 1.402 | 0.99 |
| 89_L | 141_Y | 1.398 | 0.98 |
| 46_A | 50_V | 1.392 | 0.98 |
| 73_H | 79_W | 1.382 | 0.98 |
| 190_E | 195_P | 1.380 | 0.98 |
| 124_R | 133_L | 1.339 | 0.98 |
| 162_P | 165_F | 1.322 | 0.98 |
| 84_D | 136_D | 1.298 | 0.97 |
| 46_A | 85_L | 1.297 | 0.97 |
| 65_G | 80_D | 1.290 | 0.97 |
| 63_E | 188_F | 1.287 | 0.97 |
| 59_R | 91_D | 1.278 | 0.97 |
| 62_L | 66_S | 1.271 | 0.97 |
| 65_G | 68_L | 1.263 | 0.97 |
| 123_F | 126_Q | 1.262 | 0.97 |
| 86_G | 140_F | 1.262 | 0.97 |
| 75_D | 175_A | 1.249 | 0.96 |
| 80_D | 84_D | 1.203 | 0.95 |
| 67_L | 181_A | 1.189 | 0.95 |
| 53_L | 95_C | 1.184 | 0.95 |
| 65_G | 193_F | 1.174 | 0.94 |
| 107_V | 113_V | 1.173 | 0.94 |
| 78_P | 174_F | 1.165 | 0.94 |
| 53_L | 87_I | 1.164 | 0.94 |
| 136_D | 139_P | 1.161 | 0.94 |
| 110_R | 113_V | 1.153 | 0.93 |
| 87_I | 137_L | 1.153 | 0.93 |
| 190_E | 196_G | 1.151 | 0.93 |
| 70_A | 181_A | 1.129 | 0.93 |
| 170_V | 183_N | 1.117 | 0.92 |
| 73_H | 76_I | 1.100 | 0.91 |
| 144_N | 147_M | 1.095 | 0.91 |
| 173_P | 178_V | 1.094 | 0.91 |
| 65_G | 72_R | 1.092 | 0.91 |
| 74_G | 172_L | 1.089 | 0.91 |
| 70_A | 174_F | 1.079 | 0.90 |
| 138_W | 141_Y | 1.071 | 0.90 |
| 66_S | 72_R | 1.068 | 0.90 |
| 81_Y | 139_P | 1.054 | 0.89 |
| 53_L | 85_L | 1.054 | 0.89 |
| 121_D | 124_R | 1.050 | 0.88 |
| 187_R | 191_L | 1.049 | 0.88 |
| 92_V | 96_E | 1.049 | 0.88 |
| 44_E | 48_Y | 1.042 | 0.88 |
| 165_F | 187_R | 1.039 | 0.88 |
| 128_S | 132_H | 1.039 | 0.88 |
| 64_G | 192_K | 1.031 | 0.87 |
| 124_R | 127_Y | 1.030 | 0.87 |
| 87_I | 92_V | 1.023 | 0.87 |
| 145_G | 149_K | 1.012 | 0.86 |
| 45_T | 48_Y | 1.011 | 0.86 |
| 187_R | 190_E | 1.007 | 0.85 |
| 130_S | 133_L | 1.004 | 0.85 |
| 91_D | 94_N | 1.001 | 0.85 |
| 51_G | 57_G | 1.001 | 0.85 |
| 88_Y | 95_C | 1.000 | 0.85 |
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 | |
| 2fclA | 1 | 0.6558 | 94.5 | 0.895 | Contact Map |
| 4wh5A | 2 | 0.7349 | 92.2 | 0.903 | Contact Map |
| 4wqkA | 1 | 0.707 | 91.6 | 0.905 | Contact Map |
| 1r89A | 1 | 0.8093 | 55.2 | 0.933 | Contact Map |
| 1px5A | 2 | 0.8791 | 24.4 | 0.945 | Contact Map |
| 4xq7A | 1 | 0 | 20.4 | 0.947 | Contact Map |
| 1ylqA | 2 | 0.414 | 19.4 | 0.948 | Contact Map |
| 4xj6A | 1 | 0 | 14.3 | 0.951 | Contact Map |
| 1wotA | 1 | 0.4558 | 9.1 | 0.955 | Contact Map |
| 3zzmA | 2 | 0.414 | 9 | 0.955 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)