| AAC1_Jackhammer |
| ID: | 1468930986 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 298 (292) | ||
| Sequences: | 13380 (7634.6) | ||
| Seq/Len: | 45.822 | ||
| Nf(neff/√len): | 446.8 |
HHblits Results: (2016_02)
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: 45.822).
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 |
| 262_A | 270_F | 3.600 | 1.00 |
| 165_F | 173_L | 3.369 | 1.00 |
| 62_P | 70_F | 2.999 | 1.00 |
| 256_D | 260_K | 2.864 | 1.00 |
| 261_I | 269_A | 2.818 | 1.00 |
| 159_D | 163_K | 2.732 | 1.00 |
| 162_I | 166_K | 2.695 | 1.00 |
| 259_R | 263_K | 2.664 | 1.00 |
| 59_V | 63_K | 2.649 | 1.00 |
| 260_K | 264_D | 2.543 | 1.00 |
| 163_K | 167_S | 2.459 | 1.00 |
| 164_I | 172_G | 2.452 | 1.00 |
| 56_D | 60_R | 2.431 | 1.00 |
| 95_Y | 122_A | 2.332 | 1.00 |
| 258_W | 270_F | 2.222 | 1.00 |
| 155_H | 159_D | 2.221 | 1.00 |
| 234_V | 258_W | 2.186 | 1.00 |
| 60_R | 64_E | 2.133 | 1.00 |
| 161_I | 173_L | 2.127 | 1.00 |
| 265_E | 269_A | 2.116 | 1.00 |
| 237_R | 265_E | 2.054 | 1.00 |
| 95_Y | 126_T | 2.048 | 1.00 |
| 33_K | 37_Q | 1.991 | 1.00 |
| 121_G | 185_I | 1.941 | 1.00 |
| 251_Y | 257_C | 1.913 | 1.00 |
| 226_L | 274_A | 1.898 | 1.00 |
| 154_F | 160_C | 1.892 | 1.00 |
| 61_I | 69_S | 1.863 | 1.00 |
| 253_G | 256_D | 1.854 | 1.00 |
| 202_L | 216_I | 1.842 | 1.00 |
| 251_Y | 256_D | 1.821 | 1.00 |
| 91_F | 95_Y | 1.796 | 1.00 |
| 140_R | 168_D | 1.780 | 1.00 |
| 58_V | 70_F | 1.740 | 1.00 |
| 30_E | 33_K | 1.730 | 1.00 |
| 252_T | 256_D | 1.692 | 1.00 |
| 262_A | 267_A | 1.690 | 1.00 |
| 117_L | 189_A | 1.682 | 1.00 |
| 35_L | 65_Q | 1.660 | 1.00 |
| 38_V | 143_A | 1.660 | 1.00 |
| 17_V | 294_I | 1.652 | 1.00 |
| 168_D | 172_G | 1.650 | 1.00 |
| 290_L | 294_I | 1.639 | 1.00 |
| 51_Y | 57_C | 1.638 | 1.00 |
| 293_E | 296_K | 1.630 | 1.00 |
| 194_V | 223_V | 1.616 | 1.00 |
| 235_R | 239_M | 1.609 | 1.00 |
| 95_Y | 119_S | 1.598 | 1.00 |
| 27_A | 31_R | 1.594 | 1.00 |
| 218_Q | 282_M | 1.561 | 1.00 |
| 154_F | 159_D | 1.554 | 1.00 |
| 136_F | 140_R | 1.543 | 1.00 |
| 198_A | 219_S | 1.538 | 1.00 |
| 265_E | 272_K | 1.533 | 1.00 |
| 159_D | 162_I | 1.529 | 1.00 |
| 156_G | 159_D | 1.503 | 1.00 |
| 255_V | 259_R | 1.500 | 1.00 |
| 52_K | 56_D | 1.496 | 1.00 |
| 32_V | 58_V | 1.494 | 1.00 |
| 56_D | 59_V | 1.480 | 1.00 |
| 65_Q | 72_R | 1.474 | 1.00 |
| 195_Y | 292_D | 1.471 | 1.00 |
| 99_F | 119_S | 1.463 | 1.00 |
| 168_D | 175_Q | 1.452 | 1.00 |
| 87_L | 91_F | 1.448 | 1.00 |
| 51_Y | 56_D | 1.442 | 1.00 |
| 21_V | 290_L | 1.429 | 1.00 |
| 197_T | 201_M | 1.426 | 1.00 |
| 31_R | 35_L | 1.414 | 1.00 |
| 165_F | 170_L | 1.404 | 0.99 |
| 94_K | 98_L | 1.377 | 0.99 |
| 197_T | 200_G | 1.370 | 0.99 |
| 190_A | 227_V | 1.369 | 0.99 |
| 198_A | 216_I | 1.368 | 0.99 |
| 132_Y | 136_F | 1.361 | 0.99 |
| 96_K | 196_D | 1.356 | 0.99 |
| 158_G | 162_I | 1.336 | 0.99 |
| 138_R | 142_A | 1.327 | 0.99 |
| 99_F | 122_A | 1.327 | 0.99 |
| 287_V | 290_L | 1.315 | 0.99 |
| 61_I | 65_Q | 1.314 | 0.99 |
| 255_V | 258_W | 1.311 | 0.99 |
| 121_G | 189_A | 1.310 | 0.99 |
| 170_L | 174_Y | 1.309 | 0.99 |
| 27_A | 71_W | 1.305 | 0.99 |
| 187_Y | 224_A | 1.304 | 0.99 |
| 74_N | 78_V | 1.289 | 0.99 |
| 15_G | 19_A | 1.288 | 0.99 |
| 194_V | 198_A | 1.277 | 0.99 |
| 229_Y | 277_N | 1.252 | 0.99 |
| 114_A | 118_A | 1.251 | 0.99 |
| 65_Q | 69_S | 1.248 | 0.99 |
| 163_K | 166_K | 1.248 | 0.99 |
| 38_V | 236_R | 1.244 | 0.98 |
| 137_A | 161_I | 1.237 | 0.98 |
| 208_V | 212_V | 1.217 | 0.98 |
| 160_C | 164_I | 1.208 | 0.98 |
| 24_T | 74_N | 1.199 | 0.98 |
| 93_D | 96_K | 1.196 | 0.98 |
| 221_T | 232_D | 1.195 | 0.98 |
| 256_D | 259_R | 1.193 | 0.98 |
| 217_A | 221_T | 1.189 | 0.98 |
| 177_F | 181_V | 1.180 | 0.98 |
| 120_G | 189_A | 1.168 | 0.97 |
| 229_Y | 233_T | 1.165 | 0.97 |
| 103_V | 115_G | 1.163 | 0.97 |
| 179_V | 254_T | 1.155 | 0.97 |
| 215_M | 219_S | 1.153 | 0.97 |
| 169_G | 172_G | 1.152 | 0.97 |
| 262_A | 265_E | 1.150 | 0.97 |
| 122_A | 126_T | 1.148 | 0.97 |
| 55_I | 59_V | 1.135 | 0.97 |
| 84_T | 88_N | 1.134 | 0.97 |
| 17_V | 21_V | 1.131 | 0.97 |
| 13_L | 16_G | 1.130 | 0.97 |
| 190_A | 194_V | 1.120 | 0.96 |
| 16_G | 82_F | 1.120 | 0.96 |
| 209_H | 212_V | 1.113 | 0.96 |
| 87_L | 130_F | 1.112 | 0.96 |
| 125_A | 181_V | 1.112 | 0.96 |
| 9_L | 13_L | 1.110 | 0.96 |
| 118_A | 122_A | 1.106 | 0.96 |
| 120_G | 124_G | 1.105 | 0.96 |
| 91_F | 126_T | 1.096 | 0.96 |
| 232_D | 235_R | 1.091 | 0.96 |
| 219_S | 223_V | 1.089 | 0.96 |
| 196_D | 199_K | 1.087 | 0.96 |
| 260_K | 263_K | 1.084 | 0.96 |
| 267_A | 271_F | 1.077 | 0.95 |
| 292_D | 295_K | 1.074 | 0.95 |
| 129_C | 177_F | 1.069 | 0.95 |
| 27_A | 74_N | 1.069 | 0.95 |
| 271_F | 274_A | 1.065 | 0.95 |
| 191_Y | 288_L | 1.063 | 0.95 |
| 215_M | 218_Q | 1.060 | 0.95 |
| 251_Y | 260_K | 1.057 | 0.95 |
| 266_G | 269_A | 1.048 | 0.94 |
| 14_A | 294_I | 1.047 | 0.94 |
| 234_V | 257_C | 1.046 | 0.94 |
| 139_T | 240_M | 1.039 | 0.94 |
| 83_P | 86_A | 1.038 | 0.94 |
| 290_L | 293_E | 1.035 | 0.94 |
| 20_A | 78_V | 1.031 | 0.94 |
| 62_P | 67_F | 1.030 | 0.94 |
| 92_K | 196_D | 1.029 | 0.94 |
| 94_K | 97_Q | 1.016 | 0.93 |
| 294_I | 298_V | 1.008 | 0.93 |
| 288_L | 292_D | 1.006 | 0.93 |
| 257_C | 261_I | 1.001 | 0.92 |
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 | |
| 1okcA | 1 | 0.9799 | 100 | 0.082 | Contact Map |
| 4c9gA | 1 | 0.8859 | 100 | 0.131 | Contact Map |
| 2lckA | 1 | 0.9396 | 100 | 0.14 | Contact Map |
| 4i5lB | 2 | 0.2383 | 19.9 | 0.949 | Contact Map |
| 2zcxA | 1 | 0.1678 | 3.4 | 0.964 | Contact Map |
| 2l5rA | 1 | 0.0772 | 3.3 | 0.965 | Contact Map |
| 3j9xA | 58 | 0 | 3.2 | 0.965 | Contact Map |
| 3fiwA | 4 | 0.1611 | 2.4 | 0.967 | Contact Map |
| 2oi8A | 1 | 0.1812 | 2.4 | 0.967 | Contact Map |
| 4mo7A | 1 | 0.1678 | 2.2 | 0.967 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)