| FYRN-FYRC |
| ID: | 1434578082 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 139 (136) | ||
| Sequences: | 421 (282.1) | ||
| Seq/Len: | 3.096 | ||
| Nf(neff/√len): | 24.2 |
Jackhmmer Results: (2015_01_07)
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: 3.096).
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 |
| 60_I | 80_L | 3.039 | 1.00 |
| 7_D | 30_S | 2.757 | 1.00 |
| 6_I | 114_V | 2.752 | 1.00 |
| 22_L | 118_I | 2.160 | 1.00 |
| 49_I | 109_I | 1.996 | 1.00 |
| 119_E | 130_Y | 1.936 | 1.00 |
| 77_W | 106_M | 1.923 | 0.99 |
| 48_K | 59_E | 1.799 | 0.99 |
| 23_F | 121_L | 1.770 | 0.99 |
| 68_I | 76_A | 1.731 | 0.99 |
| 12_L | 127_C | 1.673 | 0.98 |
| 50_V | 59_E | 1.646 | 0.98 |
| 48_K | 61_S | 1.591 | 0.97 |
| 33_Y | 42_R | 1.537 | 0.97 |
| 7_D | 28_Q | 1.529 | 0.96 |
| 28_Q | 48_K | 1.528 | 0.96 |
| 21_K | 104_L | 1.490 | 0.96 |
| 77_W | 80_L | 1.432 | 0.94 |
| 29_C | 107_L | 1.425 | 0.94 |
| 23_F | 119_E | 1.367 | 0.92 |
| 49_I | 124_A | 1.354 | 0.92 |
| 33_Y | 45_Y | 1.312 | 0.90 |
| 77_W | 121_L | 1.280 | 0.89 |
| 31_R | 122_S | 1.275 | 0.88 |
| 76_A | 125_K | 1.275 | 0.88 |
| 16_S | 73_I | 1.248 | 0.87 |
| 36_T | 68_I | 1.232 | 0.86 |
| 60_I | 77_W | 1.227 | 0.86 |
| 81_T | 112_D | 1.206 | 0.84 |
| 33_Y | 88_R | 1.187 | 0.83 |
| 87_A | 90_N | 1.178 | 0.82 |
| 27_Y | 69_C | 1.177 | 0.82 |
| 35_S | 45_Y | 1.169 | 0.82 |
| 60_I | 106_M | 1.150 | 0.80 |
| 89_S | 92_R | 1.139 | 0.79 |
| 15_L | 55_G | 1.136 | 0.79 |
| 6_I | 36_T | 1.135 | 0.79 |
| 16_S | 120_Q | 1.133 | 0.79 |
| 43_C | 62_S | 1.125 | 0.78 |
| 84_V | 118_I | 1.115 | 0.77 |
| 56_L | 107_L | 1.089 | 0.75 |
| 89_S | 93_L | 1.084 | 0.74 |
| 17_D | 122_S | 1.079 | 0.74 |
| 25_I | 52_P | 1.078 | 0.74 |
| 114_V | 118_I | 1.076 | 0.74 |
| 6_I | 74_E | 1.073 | 0.73 |
| 23_F | 104_L | 1.064 | 0.72 |
| 14_D | 127_C | 1.061 | 0.72 |
| 5_T | 72_S | 1.059 | 0.72 |
| 23_F | 85_Q | 1.042 | 0.70 |
| 114_V | 122_S | 1.039 | 0.70 |
| 73_I | 90_N | 1.036 | 0.70 |
| 74_E | 88_R | 1.029 | 0.69 |
| 16_S | 57_V | 1.027 | 0.69 |
| 127_C | 130_Y | 1.026 | 0.68 |
| 42_R | 116_F | 1.025 | 0.68 |
| 70_A | 75_D | 1.024 | 0.68 |
| 46_T | 132_F | 1.018 | 0.68 |
| 1_I | 110_L | 1.009 | 0.67 |
| 34_W | 42_R | 1.008 | 0.66 |
| 105_R | 128_R | 1.008 | 0.66 |
| 74_E | 105_R | 1.007 | 0.66 |
| 49_I | 69_C | 1.000 | 0.66 |
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 | |
| 2wzoA | 1 | 0.9568 | 100 | 0.188 | Contact Map |
| 2b6cA | 2 | 0.4101 | 18 | 0.94 | Contact Map |
| 2wteA | 2 | 0.705 | 14.7 | 0.942 | Contact Map |
| 2od4A | 2 | 0.4388 | 11.6 | 0.945 | Contact Map |
| 3k2zA | 2 | 0.4676 | 10.6 | 0.946 | Contact Map |
| 1qgpA | 1 | 0.5036 | 7.9 | 0.949 | Contact Map |
| 3jxyA | 1 | 0.4892 | 7.8 | 0.949 | Contact Map |
| 3rcqA | 1 | 0.6835 | 7.7 | 0.949 | Contact Map |
| 2x1lA | 3 | 0.5612 | 6.7 | 0.95 | Contact Map |
| 2cg4A | 2 | 0.4388 | 6.3 | 0.951 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)