| T7gp10 |
| ID: | 1485022026 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 345 (308) | ||
| Sequences: | 429 (336) | ||
| Seq/Len: | 1.393 | ||
| Nf(neff/√len): | 19.1 |
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: 1.393).
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 |
| 197_K | 212_D | 3.095 | 1.00 |
| 196_T | 205_R | 2.626 | 1.00 |
| 191_A | 338_G | 2.487 | 1.00 |
| 49_R | 293_M | 2.470 | 1.00 |
| 245_F | 292_F | 2.347 | 0.99 |
| 104_V | 126_L | 2.180 | 0.99 |
| 207_F | 292_F | 2.119 | 0.99 |
| 199_Y | 251_P | 1.972 | 0.97 |
| 191_A | 292_F | 1.906 | 0.97 |
| 195_L | 200_V | 1.868 | 0.96 |
| 79_N | 315_N | 1.788 | 0.95 |
| 62_Q | 91_E | 1.769 | 0.94 |
| 132_M | 199_Y | 1.746 | 0.94 |
| 87_I | 122_Y | 1.734 | 0.93 |
| 191_A | 340_V | 1.721 | 0.93 |
| 63_F | 299_G | 1.718 | 0.93 |
| 299_G | 332_L | 1.674 | 0.92 |
| 145_L | 259_G | 1.626 | 0.90 |
| 193_A | 212_D | 1.617 | 0.90 |
| 192_R | 196_T | 1.587 | 0.89 |
| 96_I | 303_L | 1.583 | 0.89 |
| 188_L | 207_F | 1.583 | 0.89 |
| 331_G | 334_P | 1.572 | 0.88 |
| 35_E | 120_S | 1.542 | 0.87 |
| 63_F | 332_L | 1.444 | 0.81 |
| 145_L | 338_G | 1.441 | 0.81 |
| 185_I | 242_V | 1.433 | 0.81 |
| 196_T | 249_E | 1.431 | 0.81 |
| 290_G | 342_F | 1.422 | 0.80 |
| 317_Q | 324_K | 1.415 | 0.80 |
| 205_R | 294_H | 1.413 | 0.79 |
| 60_S | 95_T | 1.408 | 0.79 |
| 189_T | 243_M | 1.406 | 0.79 |
| 129_S | 133_A | 1.394 | 0.78 |
| 242_V | 247_V | 1.392 | 0.78 |
| 106_I | 321_I | 1.390 | 0.78 |
| 201_P | 205_R | 1.373 | 0.77 |
| 49_R | 206_V | 1.369 | 0.76 |
| 60_S | 93_V | 1.368 | 0.76 |
| 126_L | 323_A | 1.341 | 0.74 |
| 208_Y | 293_M | 1.337 | 0.74 |
| 185_I | 220_A | 1.337 | 0.74 |
| 312_R | 319_D | 1.330 | 0.73 |
| 142_I | 298_V | 1.321 | 0.73 |
| 98_G | 113_M | 1.319 | 0.73 |
| 46_T | 138_V | 1.314 | 0.72 |
| 269_K | 272_F | 1.311 | 0.72 |
| 142_I | 293_M | 1.310 | 0.72 |
| 195_L | 309_E | 1.305 | 0.71 |
| 113_M | 303_L | 1.304 | 0.71 |
| 213_S | 342_F | 1.303 | 0.71 |
| 42_R | 199_Y | 1.300 | 0.71 |
| 189_T | 219_A | 1.300 | 0.71 |
| 221_L | 225_A | 1.298 | 0.71 |
| 208_Y | 250_V | 1.294 | 0.71 |
| 139_L | 195_L | 1.286 | 0.70 |
| 240_R | 246_E | 1.276 | 0.69 |
| 317_Q | 322_I | 1.273 | 0.69 |
| 237_G | 244_G | 1.264 | 0.68 |
| 74_L | 101_T | 1.263 | 0.68 |
| 248_V | 293_M | 1.260 | 0.68 |
| 86_D | 195_L | 1.253 | 0.67 |
| 188_L | 245_F | 1.249 | 0.67 |
| 109_I | 326_A | 1.247 | 0.66 |
| 211_P | 249_E | 1.244 | 0.66 |
| 30_K | 62_Q | 1.243 | 0.66 |
| 64_P | 116_Y | 1.241 | 0.66 |
| 142_I | 291_L | 1.239 | 0.66 |
| 192_R | 245_F | 1.238 | 0.66 |
| 180_L | 183_E | 1.237 | 0.66 |
| 205_R | 245_F | 1.237 | 0.66 |
| 100_L | 317_Q | 1.228 | 0.65 |
| 259_G | 282_K | 1.225 | 0.64 |
| 209_C | 217_I | 1.225 | 0.64 |
| 23_D | 106_I | 1.220 | 0.64 |
| 142_I | 176_D | 1.219 | 0.64 |
| 241_N | 249_E | 1.216 | 0.64 |
| 102_A | 126_L | 1.216 | 0.64 |
| 30_K | 60_S | 1.212 | 0.63 |
| 228_Y | 321_I | 1.211 | 0.63 |
| 145_L | 156_I | 1.210 | 0.63 |
| 89_H | 333_R | 1.205 | 0.63 |
| 158_G | 251_P | 1.204 | 0.62 |
| 236_K | 241_N | 1.202 | 0.62 |
| 302_K | 305_D | 1.196 | 0.62 |
| 64_P | 91_E | 1.195 | 0.62 |
| 268_Q | 271_V | 1.192 | 0.61 |
| 32_F | 178_V | 1.181 | 0.60 |
| 189_T | 192_R | 1.172 | 0.59 |
| 220_A | 223_P | 1.166 | 0.59 |
| 197_K | 202_A | 1.162 | 0.58 |
| 197_K | 249_E | 1.158 | 0.58 |
| 40_F | 325_Y | 1.158 | 0.58 |
| 193_A | 215_S | 1.155 | 0.58 |
| 105_L | 318_A | 1.154 | 0.58 |
| 226_A | 230_A | 1.152 | 0.57 |
| 103_D | 322_I | 1.145 | 0.57 |
| 140_A | 144_G | 1.144 | 0.57 |
| 53_R | 94_I | 1.140 | 0.56 |
| 67_G | 129_S | 1.137 | 0.56 |
| 181_G | 184_I | 1.129 | 0.55 |
| 41_A | 132_M | 1.129 | 0.55 |
| 89_H | 122_Y | 1.125 | 0.55 |
| 309_E | 312_R | 1.116 | 0.54 |
| 313_R | 320_Q | 1.114 | 0.54 |
| 167_T | 171_K | 1.110 | 0.53 |
| 132_M | 252_H | 1.108 | 0.53 |
| 127_G | 131_A | 1.107 | 0.53 |
| 43_T | 199_Y | 1.102 | 0.52 |
| 224_N | 251_P | 1.093 | 0.51 |
| 106_I | 111_D | 1.088 | 0.51 |
| 32_F | 68_R | 1.087 | 0.51 |
| 40_F | 80_L | 1.084 | 0.51 |
| 147_N | 337_A | 1.081 | 0.50 |
| 243_M | 248_V | 1.080 | 0.50 |
| 187_A | 340_V | 1.077 | 0.50 |
| 101_T | 107_Y | 1.075 | 0.50 |
| 66_L | 121_E | 1.074 | 0.50 |
| 144_G | 339_A | 1.072 | 0.49 |
| 185_I | 223_P | 1.070 | 0.49 |
| 189_T | 215_S | 1.070 | 0.49 |
| 198_N | 340_V | 1.068 | 0.49 |
| 51_M | 94_I | 1.066 | 0.49 |
| 268_Q | 272_F | 1.066 | 0.49 |
| 201_P | 294_H | 1.064 | 0.48 |
| 193_A | 197_K | 1.047 | 0.47 |
| 209_C | 218_L | 1.043 | 0.46 |
| 63_F | 94_I | 1.037 | 0.46 |
| 180_L | 184_I | 1.034 | 0.45 |
| 191_A | 337_A | 1.033 | 0.45 |
| 195_L | 338_G | 1.032 | 0.45 |
| 303_L | 322_I | 1.030 | 0.45 |
| 174_L | 209_C | 1.029 | 0.45 |
| 132_M | 201_P | 1.028 | 0.45 |
| 69_T | 87_I | 1.018 | 0.44 |
| 108_D | 312_R | 1.011 | 0.43 |
| 161_T | 335_E | 1.011 | 0.43 |
| 179_A | 295_R | 1.008 | 0.43 |
| 47_T | 134_A | 1.005 | 0.43 |
| 102_A | 129_S | 1.005 | 0.43 |
| 143_A | 236_K | 1.002 | 0.42 |
| 57_S | 186_A | 1.001 | 0.42 |
| 233_D | 236_K | 1.000 | 0.42 |
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 | |
| 3j7wA | 7 | 0.971 | 100 | 0.313 | Contact Map |
| 4bmlA | 7 | 0.8725 | 100 | 0.332 | Contact Map |
| 2xd8A | 7 | 0.9449 | 100 | 0.382 | Contact Map |
| 4an5A | 7 | 0.6493 | 99.6 | 0.743 | Contact Map |
| 2xyyA | 7 | 0.8087 | 99.5 | 0.764 | Contact Map |
| 3qprA | 7 | 0.7246 | 99 | 0.818 | Contact Map |
| 1ohgA | 7 | 0.7942 | 98.9 | 0.824 | Contact Map |
| 2e0zA | 3 | 0.6812 | 97.4 | 0.88 | Contact Map |
| 4pt2P | 3 | 0.7797 | 97.2 | 0.885 | Contact Map |
| 3dktA | 10 | 0.7507 | 96.5 | 0.894 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)