| All 6-blade propeller unique domains 95 total non-default parameters |
| ID: | 1482661502 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 323 (295) | ||
| Sequences: | 6449 (4004.1) | ||
| Seq/Len: | 21.861 | ||
| Nf(neff/√len): | 233.1 |
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: 21.861).
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 |
| 153_D | 156_N | 3.623 | 1.00 |
| 141_K | 183_A | 2.976 | 1.00 |
| 114_R | 145_Q | 2.886 | 1.00 |
| 162_T | 188_M | 2.861 | 1.00 |
| 192_E | 195_Y | 2.776 | 1.00 |
| 191_K | 234_R | 2.744 | 1.00 |
| 186_K | 189_N | 2.551 | 1.00 |
| 164_N | 248_R | 2.503 | 1.00 |
| 157_E | 169_W | 2.456 | 1.00 |
| 13_K | 40_R | 2.435 | 1.00 |
| 110_L | 118_V | 2.360 | 1.00 |
| 161_V | 252_F | 2.290 | 1.00 |
| 226_F | 238_I | 2.244 | 1.00 |
| 208_S | 220_K | 2.196 | 1.00 |
| 168_L | 229_A | 2.163 | 1.00 |
| 154_G | 172_E | 2.159 | 1.00 |
| 178_V | 182_A | 2.068 | 1.00 |
| 57_T | 61_N | 2.029 | 1.00 |
| 198_S | 252_F | 2.006 | 1.00 |
| 112_V | 160_L | 1.991 | 1.00 |
| 289_F | 292_D | 1.986 | 1.00 |
| 11_V | 14_D | 1.942 | 1.00 |
| 48_N | 51_D | 1.940 | 1.00 |
| 229_A | 233_K | 1.887 | 1.00 |
| 47_M | 51_D | 1.846 | 1.00 |
| 208_S | 280_F | 1.812 | 1.00 |
| 214_Q | 298_R | 1.768 | 1.00 |
| 160_L | 187_G | 1.751 | 1.00 |
| 58_N | 145_Q | 1.745 | 1.00 |
| 168_L | 233_K | 1.727 | 1.00 |
| 190_L | 195_Y | 1.714 | 1.00 |
| 274_K | 277_D | 1.691 | 1.00 |
| 213_T | 239_L | 1.684 | 1.00 |
| 273_I | 290_V | 1.681 | 1.00 |
| 227_E | 236_V | 1.641 | 1.00 |
| 242_L | 246_P | 1.626 | 1.00 |
| 188_M | 196_I | 1.567 | 1.00 |
| 4_S | 48_N | 1.559 | 1.00 |
| 21_S | 24_S | 1.544 | 1.00 |
| 263_L | 290_V | 1.512 | 1.00 |
| 13_K | 42_L | 1.500 | 1.00 |
| 266_E | 297_G | 1.491 | 1.00 |
| 57_T | 94_I | 1.488 | 1.00 |
| 165_G | 268_S | 1.487 | 1.00 |
| 117_M | 141_K | 1.473 | 1.00 |
| 212_A | 264_Q | 1.436 | 1.00 |
| 211_V | 238_I | 1.431 | 1.00 |
| 171_D | 223_L | 1.430 | 1.00 |
| 251_G | 302_V | 1.430 | 1.00 |
| 229_A | 236_V | 1.427 | 1.00 |
| 213_T | 265_T | 1.419 | 1.00 |
| 144_D | 160_L | 1.411 | 1.00 |
| 110_L | 158_L | 1.373 | 0.99 |
| 118_V | 187_G | 1.372 | 0.99 |
| 253_V | 256_Q | 1.365 | 0.99 |
| 5_E | 49_T | 1.364 | 0.99 |
| 294_E | 298_R | 1.362 | 0.99 |
| 7_V | 67_V | 1.354 | 0.99 |
| 141_K | 144_D | 1.346 | 0.99 |
| 121_T | 126_Y | 1.346 | 0.99 |
| 266_E | 298_R | 1.325 | 0.99 |
| 217_A | 289_F | 1.319 | 0.99 |
| 108_Y | 177_I | 1.316 | 0.99 |
| 122_E | 125_H | 1.315 | 0.99 |
| 117_M | 186_K | 1.303 | 0.99 |
| 21_S | 113_T | 1.297 | 0.99 |
| 159_F | 170_F | 1.289 | 0.99 |
| 105_L | 124_K | 1.286 | 0.99 |
| 4_S | 49_T | 1.279 | 0.99 |
| 293_E | 299_V | 1.277 | 0.99 |
| 242_L | 248_R | 1.271 | 0.99 |
| 152_T | 172_E | 1.270 | 0.99 |
| 213_T | 216_G | 1.251 | 0.99 |
| 17_V | 65_C | 1.247 | 0.99 |
| 214_Q | 248_R | 1.244 | 0.98 |
| 59_K | 88_I | 1.233 | 0.98 |
| 28_S | 31_Q | 1.226 | 0.98 |
| 162_T | 166_Y | 1.226 | 0.98 |
| 149_V | 152_T | 1.218 | 0.98 |
| 19_R | 211_V | 1.212 | 0.98 |
| 113_T | 162_T | 1.210 | 0.98 |
| 88_I | 100_I | 1.209 | 0.98 |
| 73_I | 77_D | 1.203 | 0.98 |
| 216_G | 268_S | 1.181 | 0.98 |
| 111_F | 149_V | 1.178 | 0.98 |
| 82_I | 94_I | 1.175 | 0.98 |
| 291_L | 299_V | 1.174 | 0.98 |
| 126_Y | 178_V | 1.170 | 0.97 |
| 213_T | 217_A | 1.170 | 0.97 |
| 141_K | 190_L | 1.152 | 0.97 |
| 20_T | 24_S | 1.147 | 0.97 |
| 19_R | 28_S | 1.140 | 0.97 |
| 4_S | 101_N | 1.138 | 0.97 |
| 53_L | 137_G | 1.132 | 0.97 |
| 66_P | 69_E | 1.108 | 0.96 |
| 163_H | 248_R | 1.101 | 0.96 |
| 61_N | 113_T | 1.096 | 0.96 |
| 195_Y | 211_V | 1.091 | 0.96 |
| 112_V | 118_V | 1.084 | 0.96 |
| 74_R | 77_D | 1.082 | 0.96 |
| 157_E | 171_D | 1.078 | 0.95 |
| 235_G | 287_G | 1.077 | 0.95 |
| 113_T | 265_T | 1.076 | 0.95 |
| 56_F | 140_L | 1.076 | 0.95 |
| 237_V | 240_R | 1.074 | 0.95 |
| 163_H | 214_Q | 1.064 | 0.95 |
| 208_S | 222_K | 1.063 | 0.95 |
| 61_N | 88_I | 1.061 | 0.95 |
| 111_F | 120_K | 1.055 | 0.95 |
| 117_M | 166_Y | 1.054 | 0.95 |
| 49_T | 67_V | 1.047 | 0.94 |
| 248_R | 263_L | 1.045 | 0.94 |
| 46_E | 65_C | 1.042 | 0.94 |
| 110_L | 152_T | 1.041 | 0.94 |
| 9_V | 56_F | 1.040 | 0.94 |
| 239_L | 246_P | 1.035 | 0.94 |
| 7_V | 19_R | 1.026 | 0.94 |
| 221_M | 225_E | 1.026 | 0.94 |
| 20_T | 112_V | 1.025 | 0.93 |
| 63_L | 146_V | 1.025 | 0.93 |
| 178_V | 183_A | 1.022 | 0.93 |
| 112_V | 199_G | 1.022 | 0.93 |
| 259_D | 304_K | 1.016 | 0.93 |
| 157_E | 228_K | 1.015 | 0.93 |
| 110_L | 175_V | 1.012 | 0.93 |
| 21_S | 265_T | 1.010 | 0.93 |
| 35_M | 38_T | 1.009 | 0.93 |
| 81_H | 99_P | 1.008 | 0.93 |
| 166_Y | 234_R | 1.007 | 0.93 |
| 57_T | 63_L | 1.007 | 0.93 |
| 164_N | 215_R | 1.003 | 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 | |
| 2ymuA | 2 | 0.6966 | 99.9 | 0.412 | Contact Map |
| 1vyhC | 10 | 0.7337 | 99.8 | 0.434 | Contact Map |
| 1gotB | 1 | 0.7368 | 99.8 | 0.441 | Contact Map |
| 4e54B | 1 | 0.7461 | 99.8 | 0.457 | Contact Map |
| 3sfzA | 1 | 0.7276 | 99.8 | 0.458 | Contact Map |
| 1q7fA | 2 | 0.7647 | 99.8 | 0.459 | Contact Map |
| 4bzjA | 2 | 0.7771 | 99.8 | 0.459 | Contact Map |
| 4lg9A | 1 | 0.7276 | 99.8 | 0.461 | Contact Map |
| 4j73A | 1 | 0.743 | 99.8 | 0.462 | Contact Map |
| 3fvzA | 1 | 0.7957 | 99.8 | 0.463 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)