| T0783 1-275 |
| ID: | 1400524443 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 275 (235) | ||
| Sequences: | 3175 (2575.3) | ||
| Seq/Len: | 13.511 | ||
| Nf(neff/√len): | 168.0 |
Jackhmmer Results: (2014_04_16)
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: 13.511).
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 |
| 34_R | 42_Q | 3.607 | 1.00 |
| 152_S | 161_Y | 2.897 | 1.00 |
| 56_A | 93_G | 2.883 | 1.00 |
| 35_P | 38_S | 2.648 | 1.00 |
| 130_V | 176_A | 2.603 | 1.00 |
| 85_T | 88_R | 2.600 | 1.00 |
| 114_I | 182_I | 2.548 | 1.00 |
| 36_L | 224_V | 2.452 | 1.00 |
| 153_P | 214_L | 2.343 | 1.00 |
| 143_I | 214_L | 2.335 | 1.00 |
| 181_V | 204_A | 2.280 | 1.00 |
| 123_E | 218_S | 2.276 | 1.00 |
| 59_G | 81_E | 2.207 | 1.00 |
| 91_F | 95_K | 2.080 | 1.00 |
| 47_V | 128_L | 2.030 | 1.00 |
| 126_V | 142_A | 2.022 | 1.00 |
| 113_I | 176_A | 1.987 | 1.00 |
| 20_M | 29_C | 1.986 | 1.00 |
| 125_G | 129_K | 1.961 | 1.00 |
| 141_G | 201_L | 1.914 | 1.00 |
| 52_D | 78_S | 1.911 | 1.00 |
| 150_V | 170_A | 1.886 | 1.00 |
| 179_F | 183_Y | 1.860 | 1.00 |
| 49_W | 128_L | 1.836 | 1.00 |
| 11_L | 44_L | 1.822 | 1.00 |
| 146_L | 168_H | 1.806 | 1.00 |
| 152_S | 167_R | 1.775 | 1.00 |
| 12_P | 56_A | 1.774 | 1.00 |
| 8_A | 52_D | 1.761 | 1.00 |
| 188_Q | 192_Y | 1.745 | 1.00 |
| 45_E | 76_R | 1.717 | 1.00 |
| 84_V | 88_R | 1.699 | 1.00 |
| 37_I | 65_M | 1.698 | 1.00 |
| 95_K | 187_Q | 1.679 | 1.00 |
| 56_A | 89_S | 1.678 | 1.00 |
| 9_A | 44_L | 1.663 | 1.00 |
| 111_V | 134_A | 1.647 | 1.00 |
| 164_E | 167_R | 1.635 | 1.00 |
| 151_V | 206_K | 1.596 | 1.00 |
| 134_A | 138_G | 1.594 | 1.00 |
| 25_P | 61_N | 1.579 | 1.00 |
| 138_G | 178_L | 1.556 | 1.00 |
| 204_A | 210_T | 1.555 | 1.00 |
| 45_E | 75_K | 1.551 | 1.00 |
| 194_L | 197_G | 1.516 | 1.00 |
| 137_H | 213_K | 1.515 | 1.00 |
| 141_G | 171_S | 1.513 | 1.00 |
| 44_L | 127_L | 1.511 | 1.00 |
| 204_A | 208_C | 1.505 | 1.00 |
| 11_L | 41_L | 1.490 | 1.00 |
| 113_I | 131_V | 1.467 | 1.00 |
| 123_E | 126_V | 1.461 | 1.00 |
| 192_Y | 207_Y | 1.425 | 1.00 |
| 181_V | 210_T | 1.422 | 1.00 |
| 8_A | 97_L | 1.414 | 1.00 |
| 141_G | 159_L | 1.413 | 1.00 |
| 151_V | 162_S | 1.413 | 1.00 |
| 34_R | 39_Y | 1.408 | 1.00 |
| 184_E | 188_Q | 1.402 | 0.99 |
| 20_M | 230_L | 1.398 | 0.99 |
| 130_V | 215_V | 1.393 | 0.99 |
| 30_P | 33_E | 1.389 | 0.99 |
| 150_V | 168_H | 1.361 | 0.99 |
| 146_L | 170_A | 1.359 | 0.99 |
| 149_T | 198_T | 1.357 | 0.99 |
| 152_S | 163_L | 1.347 | 0.99 |
| 162_S | 206_K | 1.339 | 0.99 |
| 147_V | 219_P | 1.335 | 0.99 |
| 149_T | 162_S | 1.332 | 0.99 |
| 47_V | 50_I | 1.332 | 0.99 |
| 52_D | 98_A | 1.318 | 0.99 |
| 153_P | 169_R | 1.312 | 0.99 |
| 42_Q | 46_R | 1.307 | 0.99 |
| 121_F | 233_A | 1.306 | 0.99 |
| 172_E | 217_G | 1.283 | 0.99 |
| 94_L | 112_V | 1.261 | 0.99 |
| 122_V | 127_L | 1.259 | 0.99 |
| 197_G | 203_L | 1.257 | 0.99 |
| 170_A | 219_P | 1.253 | 0.99 |
| 130_V | 142_A | 1.253 | 0.99 |
| 134_A | 140_A | 1.251 | 0.99 |
| 133_A | 215_V | 1.234 | 0.98 |
| 8_A | 109_P | 1.229 | 0.98 |
| 126_V | 218_S | 1.224 | 0.98 |
| 32_L | 234_E | 1.212 | 0.98 |
| 14_G | 82_A | 1.203 | 0.98 |
| 46_R | 124_E | 1.202 | 0.98 |
| 142_A | 169_R | 1.201 | 0.98 |
| 85_T | 196_F | 1.189 | 0.98 |
| 129_K | 216_E | 1.188 | 0.98 |
| 194_L | 207_Y | 1.187 | 0.98 |
| 88_R | 190_S | 1.182 | 0.98 |
| 34_R | 38_S | 1.180 | 0.98 |
| 143_I | 169_R | 1.178 | 0.98 |
| 62_M | 66_K | 1.177 | 0.98 |
| 62_M | 81_E | 1.177 | 0.98 |
| 22_V | 29_C | 1.176 | 0.98 |
| 144_R | 217_G | 1.168 | 0.97 |
| 10_V | 93_G | 1.163 | 0.97 |
| 87_H | 186_Y | 1.162 | 0.97 |
| 57_V | 79_L | 1.161 | 0.97 |
| 144_R | 219_P | 1.158 | 0.97 |
| 185_A | 208_C | 1.149 | 0.97 |
| 38_S | 42_Q | 1.147 | 0.97 |
| 180_D | 184_E | 1.140 | 0.97 |
| 18_E | 85_T | 1.125 | 0.97 |
| 158_C | 211_K | 1.119 | 0.96 |
| 134_A | 176_A | 1.114 | 0.96 |
| 31_I | 233_A | 1.100 | 0.96 |
| 49_W | 132_T | 1.086 | 0.96 |
| 222_W | 232_A | 1.076 | 0.95 |
| 91_F | 190_S | 1.073 | 0.95 |
| 47_V | 124_E | 1.067 | 0.95 |
| 231_Y | 234_E | 1.064 | 0.95 |
| 186_Y | 200_C | 1.064 | 0.95 |
| 144_R | 172_E | 1.060 | 0.95 |
| 121_F | 237_I | 1.059 | 0.95 |
| 57_V | 65_M | 1.054 | 0.95 |
| 12_P | 90_I | 1.054 | 0.95 |
| 186_Y | 203_L | 1.050 | 0.94 |
| 12_P | 40_T | 1.043 | 0.94 |
| 142_A | 217_G | 1.041 | 0.94 |
| 109_P | 179_F | 1.034 | 0.94 |
| 29_C | 230_L | 1.026 | 0.94 |
| 87_H | 197_G | 1.025 | 0.93 |
| 92_N | 95_K | 1.023 | 0.93 |
| 43_A | 122_V | 1.018 | 0.93 |
| 146_L | 150_V | 1.010 | 0.93 |
| 159_L | 171_S | 1.006 | 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 | |
| 2yc3A | 1 | 0.7964 | 100 | 0.54 | Contact Map |
| 1w55A | 1 | 0.8473 | 100 | 0.554 | Contact Map |
| 3q80A | 2 | 0.7964 | 100 | 0.562 | Contact Map |
| 1i52A | 1 | 0.8036 | 100 | 0.567 | Contact Map |
| 4mybA | 1 | 0.7709 | 100 | 0.568 | Contact Map |
| 4jisA | 2 | 0.7891 | 100 | 0.576 | Contact Map |
| 1vgwA | 6 | 0.7782 | 100 | 0.576 | Contact Map |
| 2vshA | 2 | 0.7964 | 100 | 0.576 | Contact Map |
| 2xwlA | 2 | 0.8036 | 100 | 0.579 | Contact Map |
| 4kt7A | 2 | 0.8073 | 100 | 0.579 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)