| job 2 out of 6 1SUU_A |
| ID: | 1482421838 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 312 (311) | ||
| Sequences: | 4254 (2257.3) | ||
| Seq/Len: | 13.678 | ||
| Nf(neff/√len): | 128.0 |
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: 13.678).
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 |
| 169_S | 195_M | 4.371 | 1.00 |
| 148_N | 190_Q | 4.324 | 1.00 |
| 122_A | 152_F | 3.560 | 1.00 |
| 198_K | 240_T | 3.453 | 1.00 |
| 164_K | 176_I | 3.383 | 1.00 |
| 193_C | 196_K | 3.206 | 1.00 |
| 120_T | 206_V | 2.991 | 1.00 |
| 160_F | 163_E | 2.984 | 1.00 |
| 171_K | 254_S | 2.928 | 1.00 |
| 185_T | 189_T | 2.879 | 1.00 |
| 219_S | 245_Y | 2.870 | 1.00 |
| 214_Y | 226_R | 2.803 | 1.00 |
| 168_L | 258_A | 2.689 | 1.00 |
| 167_C | 194_G | 2.687 | 1.00 |
| 205_K | 258_A | 2.666 | 1.00 |
| 232_I | 244_S | 2.665 | 1.00 |
| 175_F | 239_A | 2.626 | 1.00 |
| 121_T | 145_I | 2.619 | 1.00 |
| 116_Y | 128_R | 2.493 | 1.00 |
| 175_F | 235_L | 2.454 | 1.00 |
| 195_M | 203_F | 2.451 | 1.00 |
| 120_T | 167_C | 2.433 | 1.00 |
| 16_K | 48_E | 2.429 | 1.00 |
| 7_K | 56_N | 2.390 | 1.00 |
| 295_Q | 298_F | 2.327 | 1.00 |
| 280_V | 283_K | 2.320 | 1.00 |
| 161_K | 179_S | 2.279 | 1.00 |
| 220_E | 303_S | 2.237 | 1.00 |
| 126_I | 194_G | 2.205 | 1.00 |
| 125_K | 193_C | 2.174 | 1.00 |
| 235_L | 239_A | 2.159 | 1.00 |
| 217_I | 244_S | 2.116 | 1.00 |
| 66_N | 152_F | 2.116 | 1.00 |
| 279_T | 296_V | 2.093 | 1.00 |
| 214_Y | 286_E | 2.079 | 1.00 |
| 243_T | 246_K | 1.985 | 1.00 |
| 170_K | 254_S | 1.983 | 1.00 |
| 10_I | 75_A | 1.974 | 1.00 |
| 118_L | 126_I | 1.925 | 1.00 |
| 257_D | 307_V | 1.895 | 1.00 |
| 159_V | 179_S | 1.894 | 1.00 |
| 116_Y | 184_L | 1.867 | 1.00 |
| 119_L | 153_V | 1.857 | 1.00 |
| 16_K | 50_V | 1.829 | 1.00 |
| 65_S | 102_I | 1.828 | 1.00 |
| 66_N | 100_E | 1.810 | 1.00 |
| 56_N | 59_D | 1.800 | 1.00 |
| 129_F | 134_F | 1.762 | 1.00 |
| 164_K | 234_E | 1.762 | 1.00 |
| 120_T | 194_G | 1.735 | 1.00 |
| 223_Y | 295_Q | 1.730 | 1.00 |
| 220_E | 254_S | 1.708 | 1.00 |
| 233_S | 242_Y | 1.708 | 1.00 |
| 125_K | 148_N | 1.691 | 1.00 |
| 269_L | 296_V | 1.661 | 1.00 |
| 55_V | 59_D | 1.659 | 1.00 |
| 167_C | 203_F | 1.651 | 1.00 |
| 127_A | 185_T | 1.641 | 1.00 |
| 127_A | 189_T | 1.640 | 1.00 |
| 7_K | 57_T | 1.630 | 1.00 |
| 118_L | 165_V | 1.613 | 1.00 |
| 227_L | 231_K | 1.599 | 1.00 |
| 69_K | 97_G | 1.599 | 1.00 |
| 155_S | 206_V | 1.599 | 1.00 |
| 271_S | 297_L | 1.588 | 1.00 |
| 170_K | 202_L | 1.554 | 1.00 |
| 272_K | 303_S | 1.544 | 1.00 |
| 164_K | 178_N | 1.525 | 1.00 |
| 8_E | 57_T | 1.524 | 1.00 |
| 122_A | 151_D | 1.524 | 1.00 |
| 226_R | 286_E | 1.505 | 1.00 |
| 146_K | 190_Q | 1.501 | 1.00 |
| 64_I | 156_A | 1.469 | 1.00 |
| 125_K | 190_Q | 1.454 | 1.00 |
| 66_N | 101_E | 1.441 | 1.00 |
| 64_I | 70_L | 1.440 | 1.00 |
| 67_E | 99_Q | 1.435 | 1.00 |
| 62_F | 70_L | 1.435 | 1.00 |
| 220_E | 253_G | 1.431 | 1.00 |
| 143_I | 146_K | 1.428 | 1.00 |
| 209_V | 229_M | 1.417 | 1.00 |
| 120_T | 126_I | 1.381 | 0.99 |
| 67_E | 97_G | 1.381 | 0.99 |
| 97_G | 140_R | 1.373 | 0.99 |
| 173_S | 240_T | 1.366 | 0.99 |
| 146_K | 189_T | 1.366 | 0.99 |
| 163_E | 210_K | 1.353 | 0.99 |
| 55_V | 75_A | 1.337 | 0.99 |
| 22_R | 80_D | 1.322 | 0.99 |
| 196_K | 240_T | 1.304 | 0.99 |
| 2_S | 74_N | 1.299 | 0.99 |
| 244_S | 255_V | 1.295 | 0.99 |
| 235_L | 242_Y | 1.293 | 0.99 |
| 118_L | 182_V | 1.282 | 0.99 |
| 130_E | 133_D | 1.281 | 0.99 |
| 272_K | 305_V | 1.269 | 0.99 |
| 248_S | 292_R | 1.265 | 0.99 |
| 168_L | 244_S | 1.264 | 0.99 |
| 173_S | 243_T | 1.261 | 0.99 |
| 119_L | 144_V | 1.239 | 0.98 |
| 36_K | 300_D | 1.228 | 0.98 |
| 134_F | 185_T | 1.225 | 0.98 |
| 227_L | 232_I | 1.213 | 0.98 |
| 7_K | 109_K | 1.211 | 0.98 |
| 261_V | 281_A | 1.207 | 0.98 |
| 145_I | 153_V | 1.204 | 0.98 |
| 185_T | 190_Q | 1.199 | 0.98 |
| 134_F | 144_V | 1.199 | 0.98 |
| 170_K | 201_D | 1.195 | 0.98 |
| 146_K | 188_G | 1.190 | 0.98 |
| 64_I | 119_L | 1.165 | 0.97 |
| 63_M | 105_I | 1.158 | 0.97 |
| 120_T | 203_F | 1.152 | 0.97 |
| 215_L | 229_M | 1.136 | 0.97 |
| 228_N | 286_E | 1.124 | 0.97 |
| 269_L | 304_L | 1.121 | 0.97 |
| 173_S | 198_K | 1.121 | 0.97 |
| 245_Y | 252_A | 1.115 | 0.96 |
| 123_S | 150_K | 1.115 | 0.96 |
| 166_I | 174_A | 1.113 | 0.96 |
| 128_R | 184_L | 1.111 | 0.96 |
| 113_D | 132_T | 1.109 | 0.96 |
| 243_T | 290_D | 1.102 | 0.96 |
| 116_Y | 130_E | 1.100 | 0.96 |
| 275_K | 300_D | 1.095 | 0.96 |
| 112_T | 115_A | 1.094 | 0.96 |
| 130_E | 184_L | 1.086 | 0.96 |
| 265_D | 309_K | 1.085 | 0.96 |
| 12_V | 75_A | 1.084 | 0.96 |
| 59_D | 109_K | 1.075 | 0.95 |
| 119_L | 156_A | 1.055 | 0.95 |
| 129_F | 133_D | 1.053 | 0.95 |
| 116_Y | 161_K | 1.047 | 0.94 |
| 210_K | 213_P | 1.045 | 0.94 |
| 182_V | 194_G | 1.044 | 0.94 |
| 167_C | 195_M | 1.041 | 0.94 |
| 115_A | 160_F | 1.038 | 0.94 |
| 166_I | 215_L | 1.035 | 0.94 |
| 36_K | 275_K | 1.034 | 0.94 |
| 174_A | 244_S | 1.028 | 0.94 |
| 8_E | 24_S | 1.021 | 0.93 |
| 108_S | 131_S | 1.020 | 0.93 |
| 194_G | 203_F | 1.015 | 0.93 |
| 264_D | 282_G | 1.010 | 0.93 |
| 207_L | 260_A | 1.010 | 0.93 |
| 157_E | 206_V | 1.009 | 0.93 |
| 106_K | 117_L | 1.008 | 0.93 |
| 217_I | 232_I | 1.008 | 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 | |
| 3l6vA | 2 | 0.9904 | 100 | 0.071 | Contact Map |
| 4g3nA | 1 | 0.9583 | 100 | 0.102 | Contact Map |
| 1zi0A | 2 | 0.9455 | 100 | 0.107 | Contact Map |
| 1suuA | 1 | 0.9359 | 100 | 0.109 | Contact Map |
| 1wp5A | 1 | 0.9712 | 100 | 0.125 | Contact Map |
| 3no0A | 3 | 0.875 | 100 | 0.218 | Contact Map |
| 1zvuA | 1 | 0.7147 | 100 | 0.341 | Contact Map |
| 1zvtA | 2 | 0.7532 | 100 | 0.4 | Contact Map |
| 4u7aA | 1 | 0 | 81.8 | 0.932 | Contact Map |
| 4lg8A | 1 | 0.75 | 80.2 | 0.933 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)