| DinBRecA |
| ID: | 1445898077 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 351 (341) | ||
| Sequences: | 7016 (4704.9) | ||
| Seq/Len: | 20.575 | ||
| Nf(neff/√len): | 254.8 |
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: 20.575).
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 |
| 92_R | 129_T | 4.106 | 1.00 |
| 92_R | 133_E | 3.203 | 1.00 |
| 129_T | 133_E | 3.113 | 1.00 |
| 179_A | 189_A | 3.010 | 1.00 |
| 30_A | 69_L | 2.973 | 1.00 |
| 20_D | 78_A | 2.860 | 1.00 |
| 283_I | 336_V | 2.669 | 1.00 |
| 244_G | 335_H | 2.507 | 1.00 |
| 131_F | 159_N | 2.422 | 1.00 |
| 26_D | 47_P | 2.414 | 1.00 |
| 193_E | 198_R | 2.408 | 1.00 |
| 128_Q | 132_N | 2.388 | 1.00 |
| 59_T | 71_L | 2.362 | 1.00 |
| 82_A | 85_H | 2.348 | 1.00 |
| 93_Y | 129_T | 2.305 | 1.00 |
| 98_E | 146_K | 2.299 | 1.00 |
| 9_M | 138_A | 2.285 | 1.00 |
| 75_R | 78_A | 2.273 | 1.00 |
| 130_I | 138_A | 2.265 | 1.00 |
| 125_E | 129_T | 2.249 | 1.00 |
| 179_A | 193_E | 2.219 | 1.00 |
| 195_M | 214_R | 2.175 | 1.00 |
| 18_M | 45_N | 2.174 | 1.00 |
| 174_Q | 204_Q | 2.159 | 1.00 |
| 223_W | 227_Q | 2.151 | 1.00 |
| 198_R | 202_D | 2.144 | 1.00 |
| 255_H | 258_E | 2.129 | 1.00 |
| 5_I | 109_V | 2.116 | 1.00 |
| 260_E | 317_R | 2.108 | 1.00 |
| 197_L | 203_V | 2.082 | 1.00 |
| 197_L | 206_C | 2.081 | 1.00 |
| 201_G | 205_K | 2.037 | 1.00 |
| 94_T | 107_L | 2.013 | 1.00 |
| 212_L | 220_R | 1.951 | 1.00 |
| 20_D | 75_R | 1.947 | 1.00 |
| 224_E | 229_I | 1.944 | 1.00 |
| 174_Q | 201_G | 1.900 | 1.00 |
| 127_R | 159_N | 1.899 | 1.00 |
| 274_L | 336_V | 1.895 | 1.00 |
| 87_R | 105_A | 1.879 | 1.00 |
| 270_L | 336_V | 1.821 | 1.00 |
| 148_L | 164_I | 1.793 | 1.00 |
| 61_M | 65_L | 1.785 | 1.00 |
| 256_W | 321_D | 1.779 | 1.00 |
| 21_N | 24_L | 1.708 | 1.00 |
| 260_E | 321_D | 1.697 | 1.00 |
| 302_H | 318_K | 1.688 | 1.00 |
| 287_G | 337_T | 1.676 | 1.00 |
| 267_Y | 334_L | 1.667 | 1.00 |
| 221_I | 225_R | 1.658 | 1.00 |
| 27_I | 70_T | 1.657 | 1.00 |
| 30_A | 41_I | 1.643 | 1.00 |
| 100_L | 106_Y | 1.621 | 1.00 |
| 122_I | 126_I | 1.619 | 1.00 |
| 90_F | 107_L | 1.611 | 1.00 |
| 127_R | 161_Q | 1.608 | 1.00 |
| 30_A | 53_V | 1.593 | 1.00 |
| 78_A | 81_E | 1.592 | 1.00 |
| 271_E | 309_K | 1.582 | 1.00 |
| 106_Y | 182_P | 1.564 | 1.00 |
| 57_M | 65_L | 1.560 | 1.00 |
| 91_S | 97_I | 1.556 | 1.00 |
| 165_T | 168_E | 1.555 | 1.00 |
| 245_V | 270_L | 1.551 | 1.00 |
| 220_R | 224_E | 1.545 | 1.00 |
| 123_A | 140_A | 1.538 | 1.00 |
| 170_P | 174_Q | 1.529 | 1.00 |
| 219_G | 223_W | 1.523 | 1.00 |
| 5_I | 140_A | 1.522 | 1.00 |
| 267_Y | 312_L | 1.519 | 1.00 |
| 47_P | 50_K | 1.497 | 1.00 |
| 190_A | 194_A | 1.496 | 1.00 |
| 81_E | 85_H | 1.482 | 1.00 |
| 206_C | 210_M | 1.479 | 1.00 |
| 6_H | 153_S | 1.451 | 1.00 |
| 189_A | 193_E | 1.448 | 1.00 |
| 16_V | 78_A | 1.421 | 1.00 |
| 142_V | 161_Q | 1.418 | 1.00 |
| 143_A | 148_L | 1.415 | 1.00 |
| 24_L | 29_I | 1.407 | 0.99 |
| 285_R | 337_T | 1.403 | 0.99 |
| 93_Y | 126_I | 1.383 | 0.99 |
| 61_M | 64_K | 1.377 | 0.99 |
| 304_W | 308_N | 1.373 | 0.99 |
| 5_I | 123_A | 1.371 | 0.99 |
| 51_F | 66_C | 1.364 | 0.99 |
| 58_P | 61_M | 1.363 | 0.99 |
| 93_Y | 125_E | 1.362 | 0.99 |
| 124_Q | 128_Q | 1.360 | 0.99 |
| 11_C | 15_A | 1.353 | 0.99 |
| 144_P | 169_V | 1.351 | 0.99 |
| 280_D | 339_L | 1.349 | 0.99 |
| 191_K | 214_R | 1.344 | 0.99 |
| 18_M | 25_R | 1.341 | 0.99 |
| 287_G | 301_E | 1.338 | 0.99 |
| 9_M | 136_L | 1.329 | 0.99 |
| 199_T | 202_D | 1.329 | 0.99 |
| 120_T | 124_Q | 1.319 | 0.99 |
| 124_Q | 127_R | 1.318 | 0.99 |
| 268_P | 309_K | 1.316 | 0.99 |
| 274_L | 283_I | 1.313 | 0.99 |
| 289_K | 333_G | 1.306 | 0.99 |
| 123_A | 142_V | 1.306 | 0.99 |
| 304_W | 315_T | 1.301 | 0.99 |
| 254_H | 328_G | 1.297 | 0.99 |
| 316_A | 334_L | 1.291 | 0.99 |
| 19_R | 82_A | 1.281 | 0.99 |
| 90_F | 105_A | 1.281 | 0.99 |
| 264_E | 313_I | 1.278 | 0.99 |
| 109_V | 122_I | 1.276 | 0.99 |
| 170_P | 204_Q | 1.276 | 0.99 |
| 120_T | 163_V | 1.275 | 0.99 |
| 151_I | 176_L | 1.273 | 0.99 |
| 245_V | 273_R | 1.265 | 0.99 |
| 249_M | 253_I | 1.254 | 0.99 |
| 89_I | 129_T | 1.244 | 0.98 |
| 302_H | 315_T | 1.243 | 0.98 |
| 78_A | 82_A | 1.240 | 0.98 |
| 30_A | 71_L | 1.238 | 0.98 |
| 211_L | 223_W | 1.235 | 0.98 |
| 89_I | 134_L | 1.234 | 0.98 |
| 285_R | 303_V | 1.228 | 0.98 |
| 14_A | 18_M | 1.214 | 0.98 |
| 152_A | 164_I | 1.214 | 0.98 |
| 155_M | 162_F | 1.208 | 0.98 |
| 285_R | 301_E | 1.207 | 0.98 |
| 206_C | 211_L | 1.198 | 0.98 |
| 246_E | 289_K | 1.196 | 0.98 |
| 51_F | 68_H | 1.193 | 0.98 |
| 181_I | 200_C | 1.185 | 0.98 |
| 19_R | 78_A | 1.183 | 0.98 |
| 210_M | 214_R | 1.173 | 0.98 |
| 246_E | 333_G | 1.172 | 0.98 |
| 16_V | 82_A | 1.171 | 0.98 |
| 271_E | 275_A | 1.170 | 0.97 |
| 17_E | 75_R | 1.169 | 0.97 |
| 89_I | 133_E | 1.169 | 0.97 |
| 253_I | 259_C | 1.165 | 0.97 |
| 208_L | 220_R | 1.164 | 0.97 |
| 204_Q | 227_Q | 1.162 | 0.97 |
| 9_M | 86_I | 1.161 | 0.97 |
| 202_D | 205_K | 1.160 | 0.97 |
| 271_E | 312_L | 1.158 | 0.97 |
| 267_Y | 271_E | 1.154 | 0.97 |
| 17_E | 79_Y | 1.150 | 0.97 |
| 77_D | 81_E | 1.148 | 0.97 |
| 88_E | 91_S | 1.134 | 0.97 |
| 267_Y | 313_I | 1.131 | 0.97 |
| 256_W | 260_E | 1.127 | 0.97 |
| 284_A | 303_V | 1.121 | 0.97 |
| 243_V | 277_V | 1.119 | 0.96 |
| 313_I | 317_R | 1.116 | 0.96 |
| 187_V | 190_A | 1.112 | 0.96 |
| 145_V | 148_L | 1.104 | 0.96 |
| 308_N | 311_D | 1.104 | 0.96 |
| 291_K | 331_L | 1.101 | 0.96 |
| 12_F | 16_V | 1.100 | 0.96 |
| 32_G | 59_T | 1.098 | 0.96 |
| 288_V | 319_T | 1.095 | 0.96 |
| 264_E | 317_R | 1.094 | 0.96 |
| 20_D | 82_A | 1.088 | 0.96 |
| 29_I | 72_L | 1.080 | 0.95 |
| 112_S | 122_I | 1.079 | 0.95 |
| 14_A | 29_I | 1.075 | 0.95 |
| 279_P | 340_D | 1.071 | 0.95 |
| 18_M | 47_P | 1.063 | 0.95 |
| 43_T | 49_R | 1.062 | 0.95 |
| 245_V | 269_E | 1.061 | 0.95 |
| 267_Y | 316_A | 1.057 | 0.95 |
| 46_Y | 49_R | 1.053 | 0.95 |
| 90_F | 126_I | 1.051 | 0.94 |
| 315_T | 318_K | 1.049 | 0.94 |
| 252_D | 328_G | 1.049 | 0.94 |
| 251_E | 258_E | 1.048 | 0.94 |
| 42_S | 74_G | 1.046 | 0.94 |
| 41_I | 53_V | 1.045 | 0.94 |
| 26_D | 45_N | 1.044 | 0.94 |
| 190_A | 193_E | 1.043 | 0.94 |
| 252_D | 293_D | 1.039 | 0.94 |
| 60_G | 64_K | 1.039 | 0.94 |
| 96_R | 236_S | 1.039 | 0.94 |
| 168_E | 171_A | 1.036 | 0.94 |
| 290_L | 332_V | 1.033 | 0.94 |
| 87_R | 99_P | 1.019 | 0.93 |
| 314_A | 318_K | 1.019 | 0.93 |
| 143_A | 149_A | 1.017 | 0.93 |
| 270_L | 334_L | 1.013 | 0.93 |
| 18_M | 29_I | 1.011 | 0.93 |
| 118_S | 121_L | 1.009 | 0.93 |
| 32_G | 39_G | 1.003 | 0.93 |
| 100_L | 182_P | 1.002 | 0.92 |
| 208_L | 223_W | 1.000 | 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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 4q45F | 2 | 0 | 100 | 0.032 | Contact Map |
| 4dezA | 1 | 0.6581 | 100 | 0.048 | Contact Map |
| 4f50A | 1 | 0.9459 | 100 | 0.051 | Contact Map |
| 3gqcA | 4 | 0.9687 | 100 | 0.059 | Contact Map |
| 4tqrA | 1 | 0.9544 | 100 | 0.067 | Contact Map |
| 3pzpA | 2 | 0.9487 | 100 | 0.073 | Contact Map |
| 1t94A | 2 | 0.9373 | 100 | 0.078 | Contact Map |
| 3osnA | 1 | 0.9459 | 100 | 0.083 | Contact Map |
| 4ecqA | 1 | 0.9658 | 100 | 0.092 | Contact Map |
| 2aq4A | 1 | 0.9516 | 100 | 0.093 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)