| 2eum |
| ID: | 1453971855 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 209 (198) | ||
| Sequences: | 606 (380.7) | ||
| Seq/Len: | 3.061 | ||
| Nf(neff/√len): | 27.1 |
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: 3.061).
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 |
| 28_S | 57_K | 2.511 | 1.00 |
| 19_E | 22_P | 2.284 | 1.00 |
| 96_W | 99_R | 2.113 | 1.00 |
| 96_W | 148_F | 1.961 | 1.00 |
| 93_A | 96_W | 1.944 | 1.00 |
| 54_T | 58_A | 1.909 | 0.99 |
| 63_N | 67_F | 1.881 | 0.99 |
| 71_Q | 193_V | 1.874 | 0.99 |
| 55_K | 96_W | 1.830 | 0.99 |
| 21_G | 60_Y | 1.821 | 0.99 |
| 132_Y | 140_H | 1.749 | 0.99 |
| 44_P | 96_W | 1.722 | 0.99 |
| 130_K | 133_E | 1.680 | 0.98 |
| 52_N | 96_W | 1.616 | 0.98 |
| 59_V | 67_F | 1.590 | 0.97 |
| 137_K | 145_Q | 1.581 | 0.97 |
| 52_N | 93_A | 1.577 | 0.97 |
| 74_L | 197_M | 1.573 | 0.97 |
| 24_L | 97_L | 1.559 | 0.97 |
| 31_P | 53_I | 1.556 | 0.97 |
| 145_Q | 154_A | 1.525 | 0.96 |
| 17_Q | 71_Q | 1.500 | 0.96 |
| 93_A | 148_F | 1.496 | 0.96 |
| 157_Y | 160_D | 1.490 | 0.96 |
| 17_Q | 72_N | 1.473 | 0.95 |
| 89_G | 92_L | 1.452 | 0.95 |
| 141_G | 146_K | 1.448 | 0.95 |
| 105_Q | 109_Q | 1.443 | 0.95 |
| 182_L | 199_T | 1.394 | 0.93 |
| 192_D | 196_E | 1.391 | 0.93 |
| 63_N | 66_K | 1.390 | 0.93 |
| 34_F | 152_L | 1.388 | 0.93 |
| 52_N | 148_F | 1.373 | 0.92 |
| 55_K | 93_A | 1.370 | 0.92 |
| 67_F | 73_I | 1.367 | 0.92 |
| 6_E | 12_L | 1.345 | 0.91 |
| 146_K | 149_Q | 1.340 | 0.91 |
| 45_I | 48_D | 1.303 | 0.90 |
| 138_K | 153_Y | 1.293 | 0.89 |
| 52_N | 55_K | 1.291 | 0.89 |
| 166_S | 176_C | 1.267 | 0.88 |
| 37_L | 154_A | 1.266 | 0.88 |
| 61_D | 64_P | 1.265 | 0.88 |
| 45_I | 100_G | 1.264 | 0.88 |
| 35_D | 46_K | 1.256 | 0.87 |
| 20_T | 23_F | 1.249 | 0.87 |
| 6_E | 9_L | 1.241 | 0.86 |
| 18_I | 71_Q | 1.235 | 0.86 |
| 73_I | 99_R | 1.232 | 0.86 |
| 58_A | 61_D | 1.230 | 0.86 |
| 130_K | 134_M | 1.229 | 0.86 |
| 72_N | 75_E | 1.219 | 0.85 |
| 55_K | 148_F | 1.218 | 0.85 |
| 148_F | 166_S | 1.210 | 0.84 |
| 44_P | 148_F | 1.200 | 0.84 |
| 48_D | 52_N | 1.199 | 0.84 |
| 6_E | 11_P | 1.198 | 0.83 |
| 142_W | 145_Q | 1.188 | 0.83 |
| 180_I | 184_L | 1.178 | 0.82 |
| 31_P | 161_F | 1.175 | 0.82 |
| 73_I | 93_A | 1.168 | 0.81 |
| 6_E | 13_P | 1.165 | 0.81 |
| 151_A | 154_A | 1.151 | 0.80 |
| 77_E | 99_R | 1.147 | 0.80 |
| 95_M | 99_R | 1.145 | 0.80 |
| 44_P | 93_A | 1.142 | 0.79 |
| 84_E | 143_I | 1.137 | 0.79 |
| 194_I | 198_Y | 1.130 | 0.78 |
| 110_S | 134_M | 1.128 | 0.78 |
| 118_E | 121_P | 1.128 | 0.78 |
| 110_S | 130_K | 1.126 | 0.78 |
| 189_A | 192_D | 1.105 | 0.76 |
| 5_A | 10_K | 1.090 | 0.75 |
| 35_D | 77_E | 1.089 | 0.75 |
| 47_A | 147_I | 1.087 | 0.74 |
| 157_Y | 161_F | 1.087 | 0.74 |
| 110_S | 122_N | 1.083 | 0.74 |
| 7_H | 10_K | 1.070 | 0.73 |
| 51_G | 70_L | 1.068 | 0.73 |
| 49_I | 53_I | 1.064 | 0.72 |
| 18_I | 79_E | 1.059 | 0.72 |
| 6_E | 10_K | 1.059 | 0.72 |
| 5_A | 9_L | 1.057 | 0.71 |
| 42_F | 48_D | 1.055 | 0.71 |
| 178_E | 182_L | 1.045 | 0.70 |
| 143_I | 159_S | 1.044 | 0.70 |
| 77_E | 90_A | 1.041 | 0.70 |
| 102_R | 195_Y | 1.039 | 0.70 |
| 185_V | 189_A | 1.039 | 0.70 |
| 99_R | 139_Y | 1.035 | 0.69 |
| 96_W | 141_G | 1.034 | 0.69 |
| 52_N | 141_G | 1.031 | 0.69 |
| 98_K | 195_Y | 1.030 | 0.69 |
| 198_Y | 202_N | 1.019 | 0.67 |
| 95_M | 198_Y | 1.018 | 0.67 |
| 10_K | 13_P | 1.018 | 0.67 |
| 160_D | 163_K | 1.016 | 0.67 |
| 137_K | 184_L | 1.004 | 0.66 |
| 152_L | 155_A | 1.004 | 0.66 |
| 98_K | 198_Y | 1.000 | 0.65 |
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 | |
| 3rznA | 1 | 0.9856 | 100 | 0.075 | Contact Map |
| 4nt1A | 4 | 0.9187 | 100 | 0.145 | Contact Map |
| 4k84A | 2 | 0.9522 | 100 | 0.147 | Contact Map |
| 3kv0A | 1 | 0.8182 | 100 | 0.154 | Contact Map |
| 2i3fA | 2 | 0.9043 | 100 | 0.168 | Contact Map |
| 3nftA | 1 | 0.3493 | 40.6 | 0.938 | Contact Map |
| 3r9vA | 2 | 0.3684 | 27.2 | 0.943 | Contact Map |
| 2j0oA | 2 | 0.3828 | 18.9 | 0.947 | Contact Map |
| 2wyoA | 4 | 0.4593 | 13.9 | 0.95 | Contact Map |
| 2p7nA | 1 | 0.3971 | 11.4 | 0.952 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)