| zinc xport truncate |
| ID: | 1516637409 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 343 (335) | ||
| Sequences: | 1638 (1040.7) | ||
| Seq/Len: | 4.890 | ||
| Nf(neff/√len): | 56.9 |
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: 4.890).
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 |
| 61_I | 287_L | 2.693 | 1.00 |
| 69_F | 82_A | 2.186 | 1.00 |
| 20_T | 260_Y | 2.028 | 1.00 |
| 59_N | 219_T | 1.987 | 1.00 |
| 16_F | 20_T | 1.928 | 1.00 |
| 25_A | 228_F | 1.921 | 1.00 |
| 227_E | 231_E | 1.859 | 1.00 |
| 84_A | 277_I | 1.781 | 1.00 |
| 81_K | 280_A | 1.751 | 1.00 |
| 316_F | 320_N | 1.732 | 1.00 |
| 65_I | 85_V | 1.717 | 1.00 |
| 17_L | 21_I | 1.714 | 1.00 |
| 194_D | 201_D | 1.700 | 0.99 |
| 330_I | 334_T | 1.692 | 0.99 |
| 227_E | 230_H | 1.682 | 0.99 |
| 168_E | 172_C | 1.663 | 0.99 |
| 194_D | 227_E | 1.619 | 0.99 |
| 47_F | 322_G | 1.591 | 0.99 |
| 243_M | 251_F | 1.567 | 0.99 |
| 326_G | 330_I | 1.560 | 0.99 |
| 254_L | 257_C | 1.558 | 0.99 |
| 91_L | 281_L | 1.553 | 0.99 |
| 320_N | 324_L | 1.511 | 0.99 |
| 27_L | 256_A | 1.506 | 0.98 |
| 84_A | 87_G | 1.499 | 0.98 |
| 16_F | 19_V | 1.495 | 0.98 |
| 63_Q | 226_E | 1.487 | 0.98 |
| 227_E | 286_F | 1.486 | 0.98 |
| 68_A | 280_A | 1.480 | 0.98 |
| 227_E | 234_D | 1.480 | 0.98 |
| 332_L | 336_Y | 1.465 | 0.98 |
| 201_D | 227_E | 1.439 | 0.98 |
| 84_A | 281_L | 1.436 | 0.98 |
| 216_G | 229_P | 1.435 | 0.98 |
| 114_F | 117_D | 1.421 | 0.98 |
| 17_L | 220_S | 1.420 | 0.98 |
| 317_M | 321_A | 1.406 | 0.97 |
| 231_E | 286_F | 1.403 | 0.97 |
| 217_L | 221_I | 1.388 | 0.97 |
| 230_H | 286_F | 1.384 | 0.97 |
| 62_F | 334_T | 1.381 | 0.97 |
| 198_N | 227_E | 1.377 | 0.97 |
| 223_I | 236_V | 1.375 | 0.97 |
| 244_S | 247_Q | 1.358 | 0.97 |
| 66_P | 82_A | 1.356 | 0.96 |
| 22_I | 63_Q | 1.333 | 0.96 |
| 89_F | 291_L | 1.332 | 0.96 |
| 234_D | 286_F | 1.329 | 0.96 |
| 321_A | 324_L | 1.324 | 0.96 |
| 201_D | 259_C | 1.323 | 0.96 |
| 203_L | 211_L | 1.318 | 0.96 |
| 219_T | 230_H | 1.313 | 0.96 |
| 194_D | 197_H | 1.296 | 0.95 |
| 194_D | 231_E | 1.294 | 0.95 |
| 204_A | 219_T | 1.286 | 0.95 |
| 117_D | 122_Q | 1.276 | 0.95 |
| 113_H | 117_D | 1.270 | 0.94 |
| 22_I | 201_D | 1.250 | 0.94 |
| 289_I | 294_M | 1.250 | 0.94 |
| 198_N | 229_P | 1.245 | 0.94 |
| 198_N | 216_G | 1.241 | 0.93 |
| 230_H | 234_D | 1.240 | 0.93 |
| 128_P | 131_L | 1.239 | 0.93 |
| 33_T | 235_F | 1.226 | 0.93 |
| 112_T | 115_G | 1.223 | 0.93 |
| 32_L | 36_I | 1.221 | 0.93 |
| 269_V | 274_A | 1.215 | 0.93 |
| 64_L | 232_L | 1.213 | 0.92 |
| 198_N | 255_S | 1.212 | 0.92 |
| 18_S | 209_C | 1.211 | 0.92 |
| 207_A | 233_G | 1.211 | 0.92 |
| 231_E | 234_D | 1.210 | 0.92 |
| 17_L | 267_I | 1.206 | 0.92 |
| 195_A | 254_L | 1.205 | 0.92 |
| 197_H | 202_G | 1.202 | 0.92 |
| 21_I | 98_M | 1.195 | 0.92 |
| 36_I | 41_F | 1.193 | 0.92 |
| 17_L | 25_A | 1.192 | 0.92 |
| 64_L | 223_I | 1.190 | 0.91 |
| 15_G | 222_A | 1.189 | 0.91 |
| 194_D | 230_H | 1.180 | 0.91 |
| 206_G | 267_I | 1.179 | 0.91 |
| 90_Y | 323_M | 1.168 | 0.90 |
| 53_I | 64_L | 1.167 | 0.90 |
| 229_P | 235_F | 1.165 | 0.90 |
| 193_C | 201_D | 1.164 | 0.90 |
| 234_D | 238_L | 1.161 | 0.90 |
| 56_L | 296_P | 1.158 | 0.90 |
| 198_N | 231_E | 1.157 | 0.90 |
| 26_S | 29_G | 1.156 | 0.90 |
| 191_T | 251_F | 1.155 | 0.90 |
| 74_K | 257_C | 1.154 | 0.90 |
| 282_A | 286_F | 1.150 | 0.90 |
| 194_D | 234_D | 1.150 | 0.90 |
| 15_G | 56_L | 1.149 | 0.89 |
| 7_S | 10_E | 1.143 | 0.89 |
| 201_D | 230_H | 1.142 | 0.89 |
| 252_N | 280_A | 1.141 | 0.89 |
| 21_I | 220_S | 1.138 | 0.89 |
| 30_L | 194_D | 1.136 | 0.89 |
| 242_G | 318_I | 1.135 | 0.89 |
| 59_N | 226_E | 1.128 | 0.88 |
| 231_E | 235_F | 1.125 | 0.88 |
| 104_K | 107_G | 1.122 | 0.88 |
| 187_A | 251_F | 1.119 | 0.88 |
| 150_G | 153_H | 1.115 | 0.88 |
| 57_F | 290_S | 1.113 | 0.87 |
| 208_S | 211_L | 1.113 | 0.87 |
| 87_G | 94_F | 1.110 | 0.87 |
| 219_T | 231_E | 1.109 | 0.87 |
| 67_E | 70_G | 1.109 | 0.87 |
| 64_L | 203_L | 1.109 | 0.87 |
| 94_F | 98_M | 1.106 | 0.87 |
| 204_A | 222_A | 1.104 | 0.87 |
| 108_Q | 111_H | 1.102 | 0.87 |
| 197_H | 226_E | 1.101 | 0.87 |
| 237_I | 241_A | 1.099 | 0.87 |
| 203_L | 278_I | 1.097 | 0.86 |
| 82_A | 297_E | 1.096 | 0.86 |
| 164_D | 168_E | 1.095 | 0.86 |
| 56_L | 201_D | 1.092 | 0.86 |
| 55_T | 230_H | 1.091 | 0.86 |
| 165_G | 169_P | 1.089 | 0.86 |
| 18_S | 206_G | 1.089 | 0.86 |
| 201_D | 229_P | 1.086 | 0.86 |
| 52_A | 225_C | 1.081 | 0.85 |
| 91_L | 321_A | 1.081 | 0.85 |
| 126_H | 133_A | 1.079 | 0.85 |
| 231_E | 260_Y | 1.078 | 0.85 |
| 191_T | 231_E | 1.073 | 0.85 |
| 136_G | 147_E | 1.073 | 0.85 |
| 231_E | 237_I | 1.071 | 0.85 |
| 94_F | 325_T | 1.071 | 0.85 |
| 12_W | 16_F | 1.068 | 0.84 |
| 59_N | 63_Q | 1.064 | 0.84 |
| 227_E | 255_S | 1.060 | 0.84 |
| 318_I | 322_G | 1.057 | 0.83 |
| 227_E | 237_I | 1.055 | 0.83 |
| 290_S | 293_D | 1.055 | 0.83 |
| 216_G | 227_E | 1.051 | 0.83 |
| 140_Y | 145_V | 1.051 | 0.83 |
| 24_L | 91_L | 1.050 | 0.83 |
| 279_F | 285_M | 1.050 | 0.83 |
| 169_P | 172_C | 1.048 | 0.83 |
| 89_F | 287_L | 1.047 | 0.83 |
| 201_D | 207_A | 1.046 | 0.83 |
| 110_G | 113_H | 1.046 | 0.83 |
| 52_A | 237_I | 1.045 | 0.83 |
| 234_D | 259_C | 1.044 | 0.82 |
| 205_I | 268_L | 1.041 | 0.82 |
| 116_N | 119_F | 1.039 | 0.82 |
| 127_Q | 131_L | 1.039 | 0.82 |
| 60_A | 255_S | 1.038 | 0.82 |
| 83_V | 328_T | 1.035 | 0.82 |
| 227_E | 235_F | 1.029 | 0.81 |
| 289_I | 293_D | 1.026 | 0.81 |
| 252_N | 255_S | 1.025 | 0.81 |
| 42_P | 295_F | 1.022 | 0.81 |
| 114_F | 118_N | 1.021 | 0.80 |
| 99_L | 189_M | 1.018 | 0.80 |
| 52_A | 59_N | 1.018 | 0.80 |
| 66_P | 70_G | 1.018 | 0.80 |
| 141_A | 144_A | 1.017 | 0.80 |
| 222_A | 225_C | 1.015 | 0.80 |
| 265_F | 269_V | 1.012 | 0.80 |
| 58_S | 63_Q | 1.011 | 0.80 |
| 225_C | 230_H | 1.010 | 0.79 |
| 96_E | 275_P | 1.006 | 0.79 |
| 148_A | 152_I | 1.005 | 0.79 |
| 56_L | 227_E | 1.002 | 0.79 |
| 104_K | 108_Q | 1.002 | 0.79 |
| 275_P | 281_L | 1.000 | 0.79 |
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 | |
| 4zw9A | 1 | 0 | 21.9 | 0.959 | Contact Map |
| 4j05A | 2 | 0.4461 | 19.5 | 0.96 | Contact Map |
| 3mp7A | 1 | 0.1895 | 14.5 | 0.962 | Contact Map |
| 4pypA | 1 | 0.277 | 12.7 | 0.963 | Contact Map |
| 2jlnA | 1 | 0.3032 | 12.2 | 0.964 | Contact Map |
| 3b9wA | 1 | 0.3499 | 11.8 | 0.964 | Contact Map |
| 3rlbA | 2 | 0.3761 | 10.4 | 0.965 | Contact Map |
| 4tkrA | 2 | 0.3878 | 9.1 | 0.966 | Contact Map |
| 2zy9A | 2 | 0.2128 | 9.1 | 0.966 | Contact Map |
| 4oo9A | 1 | 0.3003 | 8.6 | 0.966 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)