| Min_75_430 |
| ID: | 1508098463 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 355 (328) | ||
| Sequences: | 5760 (4261.9) | ||
| Seq/Len: | 17.561 | ||
| Nf(neff/√len): | 235.3 |
Jackhmmer Results: (2016_04)
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: 17.561).
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 |
| 177_A | 320_A | 3.835 | 1.00 |
| 279_C | 322_I | 3.507 | 1.00 |
| 147_L | 189_L | 3.263 | 1.00 |
| 283_M | 318_I | 3.210 | 1.00 |
| 140_Q | 204_F | 3.074 | 1.00 |
| 147_L | 185_Y | 2.999 | 1.00 |
| 225_T | 230_L | 2.975 | 1.00 |
| 12_T | 60_S | 2.905 | 1.00 |
| 330_S | 333_S | 2.836 | 1.00 |
| 261_V | 278_L | 2.788 | 1.00 |
| 100_F | 195_L | 2.631 | 1.00 |
| 55_R | 103_A | 2.614 | 1.00 |
| 57_T | 61_L | 2.608 | 1.00 |
| 45_T | 50_M | 2.604 | 1.00 |
| 185_Y | 189_L | 2.524 | 1.00 |
| 146_C | 150_V | 2.400 | 1.00 |
| 243_L | 263_S | 2.327 | 1.00 |
| 173_M | 320_A | 2.290 | 1.00 |
| 111_S | 245_R | 2.268 | 1.00 |
| 45_T | 48_S | 2.251 | 1.00 |
| 32_Y | 271_P | 2.192 | 1.00 |
| 141_I | 190_L | 2.165 | 1.00 |
| 158_G | 161_L | 2.149 | 1.00 |
| 174_W | 317_L | 2.140 | 1.00 |
| 226_H | 230_L | 2.127 | 1.00 |
| 196_Y | 201_A | 2.123 | 1.00 |
| 136_R | 196_Y | 2.114 | 1.00 |
| 114_R | 241_R | 2.067 | 1.00 |
| 243_L | 259_T | 2.064 | 1.00 |
| 90_K | 93_P | 2.009 | 1.00 |
| 203_E | 238_S | 1.983 | 1.00 |
| 223_E | 323_M | 1.938 | 1.00 |
| 275_F | 325_A | 1.921 | 1.00 |
| 170_V | 341_Y | 1.916 | 1.00 |
| 321_Y | 338_W | 1.903 | 1.00 |
| 227_R | 287_D | 1.876 | 1.00 |
| 10_R | 14_L | 1.873 | 1.00 |
| 229_A | 288_Y | 1.862 | 1.00 |
| 56_V | 98_L | 1.858 | 1.00 |
| 257_L | 278_L | 1.844 | 1.00 |
| 140_Q | 192_D | 1.836 | 1.00 |
| 93_P | 120_Q | 1.829 | 1.00 |
| 133_A | 201_A | 1.818 | 1.00 |
| 325_A | 334_L | 1.814 | 1.00 |
| 254_W | 258_Q | 1.812 | 1.00 |
| 279_C | 283_M | 1.798 | 1.00 |
| 133_A | 196_Y | 1.797 | 1.00 |
| 61_L | 65_E | 1.777 | 1.00 |
| 226_H | 308_R | 1.776 | 1.00 |
| 247_V | 262_F | 1.767 | 1.00 |
| 312_W | 316_Q | 1.761 | 1.00 |
| 226_H | 311_T | 1.759 | 1.00 |
| 5_P | 66_G | 1.726 | 1.00 |
| 112_F | 116_Q | 1.719 | 1.00 |
| 237_Q | 241_R | 1.701 | 1.00 |
| 165_R | 168_Q | 1.654 | 1.00 |
| 329_R | 333_S | 1.646 | 1.00 |
| 58_S | 97_Y | 1.629 | 1.00 |
| 47_S | 50_M | 1.617 | 1.00 |
| 118_R | 201_A | 1.583 | 1.00 |
| 229_A | 287_D | 1.580 | 1.00 |
| 249_Q | 252_R | 1.577 | 1.00 |
| 328_V | 334_L | 1.568 | 1.00 |
| 91_A | 95_F | 1.566 | 1.00 |
| 32_Y | 35_Q | 1.551 | 1.00 |
| 204_F | 220_W | 1.517 | 1.00 |
| 280_W | 319_I | 1.505 | 1.00 |
| 46_L | 50_M | 1.490 | 1.00 |
| 325_A | 338_W | 1.488 | 1.00 |
| 30_T | 34_L | 1.479 | 1.00 |
| 228_I | 283_M | 1.477 | 1.00 |
| 257_L | 281_A | 1.467 | 1.00 |
| 275_F | 331_L | 1.453 | 1.00 |
| 9_H | 13_F | 1.445 | 1.00 |
| 67_K | 113_Q | 1.422 | 1.00 |
| 141_I | 197_A | 1.419 | 1.00 |
| 169_C | 337_L | 1.388 | 0.99 |
| 265_W | 274_V | 1.375 | 0.99 |
| 192_D | 204_F | 1.369 | 0.99 |
| 313_A | 317_L | 1.369 | 0.99 |
| 319_I | 323_M | 1.368 | 0.99 |
| 55_R | 110_C | 1.363 | 0.99 |
| 272_G | 328_V | 1.332 | 0.99 |
| 335_W | 339_N | 1.326 | 0.99 |
| 188_W | 192_D | 1.325 | 0.99 |
| 59_L | 89_W | 1.325 | 0.99 |
| 260_F | 284_V | 1.314 | 0.99 |
| 240_A | 244_R | 1.309 | 0.99 |
| 137_R | 193_S | 1.295 | 0.99 |
| 43_Y | 50_M | 1.292 | 0.99 |
| 132_W | 136_R | 1.279 | 0.99 |
| 92_L | 96_S | 1.272 | 0.99 |
| 135_T | 139_L | 1.271 | 0.99 |
| 13_F | 18_S | 1.271 | 0.99 |
| 21_T | 29_Y | 1.267 | 0.99 |
| 229_A | 233_R | 1.265 | 0.99 |
| 228_I | 315_T | 1.262 | 0.99 |
| 62_D | 246_L | 1.262 | 0.99 |
| 144_L | 148_K | 1.250 | 0.99 |
| 103_A | 110_C | 1.249 | 0.99 |
| 221_T | 224_T | 1.235 | 0.98 |
| 169_C | 340_S | 1.233 | 0.98 |
| 134_L | 197_A | 1.230 | 0.98 |
| 331_L | 335_W | 1.221 | 0.98 |
| 325_A | 335_W | 1.218 | 0.98 |
| 114_R | 203_E | 1.218 | 0.98 |
| 260_F | 263_S | 1.209 | 0.98 |
| 179_L | 327_E | 1.207 | 0.98 |
| 251_G | 255_P | 1.197 | 0.98 |
| 27_L | 31_E | 1.192 | 0.98 |
| 308_R | 312_W | 1.172 | 0.98 |
| 160_G | 163_D | 1.164 | 0.97 |
| 174_W | 320_A | 1.163 | 0.97 |
| 226_H | 312_W | 1.162 | 0.97 |
| 279_C | 318_I | 1.160 | 0.97 |
| 41_R | 50_M | 1.160 | 0.97 |
| 56_V | 94_Y | 1.160 | 0.97 |
| 172_V | 337_L | 1.151 | 0.97 |
| 261_V | 274_V | 1.149 | 0.97 |
| 41_R | 45_T | 1.146 | 0.97 |
| 240_A | 256_L | 1.144 | 0.97 |
| 71_A | 120_Q | 1.135 | 0.97 |
| 220_W | 237_Q | 1.126 | 0.97 |
| 173_M | 341_Y | 1.124 | 0.97 |
| 131_F | 135_T | 1.119 | 0.96 |
| 177_A | 316_Q | 1.117 | 0.96 |
| 27_L | 30_T | 1.117 | 0.96 |
| 43_Y | 48_S | 1.115 | 0.96 |
| 321_Y | 325_A | 1.114 | 0.96 |
| 316_Q | 320_A | 1.111 | 0.96 |
| 17_M | 262_F | 1.109 | 0.96 |
| 115_F | 119_V | 1.107 | 0.96 |
| 141_I | 194_L | 1.104 | 0.96 |
| 173_M | 324_L | 1.100 | 0.96 |
| 260_F | 280_W | 1.100 | 0.96 |
| 231_F | 319_I | 1.097 | 0.96 |
| 260_F | 281_A | 1.096 | 0.96 |
| 336_L | 340_S | 1.094 | 0.96 |
| 22_L | 26_G | 1.093 | 0.96 |
| 28_H | 32_Y | 1.089 | 0.96 |
| 228_I | 280_W | 1.089 | 0.96 |
| 29_Y | 265_W | 1.084 | 0.96 |
| 45_T | 49_L | 1.082 | 0.96 |
| 137_R | 144_L | 1.081 | 0.95 |
| 130_S | 133_A | 1.076 | 0.95 |
| 26_G | 30_T | 1.071 | 0.95 |
| 319_I | 322_I | 1.065 | 0.95 |
| 164_C | 169_C | 1.057 | 0.95 |
| 71_A | 93_P | 1.052 | 0.95 |
| 259_T | 263_S | 1.050 | 0.94 |
| 231_F | 323_M | 1.047 | 0.94 |
| 324_L | 334_L | 1.046 | 0.94 |
| 307_Y | 311_T | 1.045 | 0.94 |
| 177_A | 323_M | 1.039 | 0.94 |
| 271_P | 274_V | 1.037 | 0.94 |
| 136_R | 140_Q | 1.029 | 0.94 |
| 249_Q | 255_P | 1.024 | 0.93 |
| 96_S | 119_V | 1.019 | 0.93 |
| 134_L | 138_G | 1.017 | 0.93 |
| 110_C | 203_E | 1.015 | 0.93 |
| 263_S | 276_G | 1.013 | 0.93 |
| 280_W | 322_I | 1.012 | 0.93 |
| 180_F | 323_M | 1.007 | 0.93 |
| 324_L | 338_W | 1.004 | 0.93 |
| 44_V | 49_L | 1.002 | 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
- 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 | |
| 4gx0A | 4 | 0.1549 | 1.7 | 0.976 | Contact Map |
| 2i2jA | 1 | 0.0592 | 1.7 | 0.976 | Contact Map |
| 2le3A | 1 | 0.1183 | 1.4 | 0.978 | Contact Map |
| 2ww9C | 1 | 0.0592 | 1.3 | 0.978 | Contact Map |
| 3giaA | 1 | 0.1915 | 1.3 | 0.978 | Contact Map |
| 1xi4A | 9 | 0.2056 | 1.2 | 0.978 | Contact Map |
| 1lbjA | 1 | 0.062 | 1.2 | 0.978 | Contact Map |
| 3k9vA | 2 | 0.169 | 1.1 | 0.979 | Contact Map |
| 1q90L | 1 | 0.0901 | 1.1 | 0.979 | Contact Map |
| 1rmkA | 1 | 0.0873 | 1 | 0.979 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)