| HST |
| ID: | 1499265671 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 337 (325) | ||
| Sequences: | 750 (464.2) | ||
| Seq/Len: | 2.308 | ||
| Nf(neff/√len): | 25.7 |
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: 2.308).
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 |
| 224_E | 232_R | 3.375 | 1.00 |
| 193_K | 197_D | 2.754 | 1.00 |
| 215_A | 220_R | 2.727 | 1.00 |
| 120_T | 124_R | 2.596 | 1.00 |
| 116_K | 173_L | 2.426 | 1.00 |
| 95_Y | 206_K | 2.391 | 1.00 |
| 62_L | 252_V | 2.359 | 1.00 |
| 103_K | 224_E | 2.291 | 1.00 |
| 107_F | 111_Q | 2.250 | 1.00 |
| 192_F | 214_L | 2.228 | 1.00 |
| 187_G | 190_G | 2.062 | 0.99 |
| 227_C | 241_C | 2.007 | 0.99 |
| 185_Y | 190_G | 1.995 | 0.99 |
| 7_R | 40_V | 1.956 | 0.99 |
| 293_L | 297_D | 1.946 | 0.99 |
| 9_C | 19_C | 1.899 | 0.99 |
| 15_E | 18_K | 1.847 | 0.99 |
| 22_F | 26_M | 1.793 | 0.98 |
| 185_Y | 197_D | 1.773 | 0.98 |
| 61_T | 251_V | 1.767 | 0.98 |
| 151_A | 170_L | 1.763 | 0.98 |
| 65_G | 249_H | 1.752 | 0.98 |
| 42_K | 47_D | 1.739 | 0.98 |
| 116_K | 219_D | 1.717 | 0.97 |
| 12_S | 18_K | 1.671 | 0.97 |
| 171_C | 174_C | 1.656 | 0.96 |
| 39_C | 48_C | 1.639 | 0.96 |
| 120_T | 125_S | 1.616 | 0.96 |
| 124_R | 188_Y | 1.613 | 0.96 |
| 120_T | 127_G | 1.593 | 0.95 |
| 122_L | 162_A | 1.585 | 0.95 |
| 171_C | 179_C | 1.583 | 0.95 |
| 237_E | 240_D | 1.566 | 0.95 |
| 22_F | 270_A | 1.558 | 0.95 |
| 292_D | 295_F | 1.538 | 0.94 |
| 42_K | 51_A | 1.529 | 0.94 |
| 285_F | 297_D | 1.528 | 0.94 |
| 120_T | 188_Y | 1.504 | 0.93 |
| 206_K | 209_T | 1.497 | 0.93 |
| 219_D | 222_Q | 1.496 | 0.93 |
| 187_G | 191_A | 1.495 | 0.93 |
| 295_F | 302_F | 1.485 | 0.93 |
| 121_G | 124_R | 1.443 | 0.91 |
| 282_F | 285_F | 1.436 | 0.91 |
| 156_G | 172_Q | 1.436 | 0.91 |
| 10_A | 16_A | 1.435 | 0.91 |
| 130_I | 244_A | 1.429 | 0.91 |
| 127_G | 131_P | 1.425 | 0.90 |
| 161_C | 174_C | 1.416 | 0.90 |
| 102_K | 198_G | 1.415 | 0.90 |
| 13_E | 41_K | 1.405 | 0.90 |
| 120_T | 206_K | 1.403 | 0.89 |
| 8_W | 15_E | 1.369 | 0.88 |
| 49_I | 70_A | 1.363 | 0.88 |
| 188_Y | 206_K | 1.355 | 0.87 |
| 194_C | 241_C | 1.354 | 0.87 |
| 9_C | 18_K | 1.343 | 0.87 |
| 9_C | 48_C | 1.339 | 0.86 |
| 97_A | 130_I | 1.326 | 0.86 |
| 285_F | 295_F | 1.325 | 0.86 |
| 225_L | 242_H | 1.319 | 0.85 |
| 112_L | 202_V | 1.311 | 0.85 |
| 108_Q | 111_Q | 1.305 | 0.84 |
| 287_S | 297_D | 1.300 | 0.84 |
| 47_D | 51_A | 1.298 | 0.84 |
| 120_T | 126_A | 1.297 | 0.84 |
| 15_E | 19_C | 1.292 | 0.83 |
| 157_S | 170_L | 1.283 | 0.83 |
| 183_N | 243_L | 1.280 | 0.83 |
| 207_H | 238_Y | 1.270 | 0.82 |
| 122_L | 159_A | 1.266 | 0.82 |
| 12_S | 15_E | 1.261 | 0.81 |
| 321_T | 325_N | 1.249 | 0.81 |
| 183_N | 186_F | 1.247 | 0.80 |
| 8_W | 18_K | 1.238 | 0.80 |
| 71_Y | 311_A | 1.238 | 0.80 |
| 189_S | 213_N | 1.231 | 0.79 |
| 118_C | 194_C | 1.229 | 0.79 |
| 67_V | 250_T | 1.226 | 0.79 |
| 158_C | 190_G | 1.226 | 0.79 |
| 98_V | 207_H | 1.223 | 0.79 |
| 192_F | 213_N | 1.223 | 0.79 |
| 9_C | 39_C | 1.222 | 0.79 |
| 64_A | 249_H | 1.222 | 0.79 |
| 226_L | 232_R | 1.212 | 0.78 |
| 26_M | 270_A | 1.204 | 0.77 |
| 178_G | 184_Q | 1.201 | 0.77 |
| 59_A | 254_R | 1.189 | 0.76 |
| 116_K | 201_D | 1.182 | 0.75 |
| 284_L | 287_S | 1.175 | 0.75 |
| 16_A | 20_Q | 1.170 | 0.74 |
| 18_K | 295_F | 1.168 | 0.74 |
| 158_C | 174_C | 1.168 | 0.74 |
| 170_L | 174_C | 1.167 | 0.74 |
| 6_V | 59_A | 1.156 | 0.73 |
| 97_A | 127_G | 1.154 | 0.73 |
| 64_A | 188_Y | 1.154 | 0.73 |
| 224_E | 234_P | 1.147 | 0.72 |
| 188_Y | 244_A | 1.146 | 0.72 |
| 292_D | 297_D | 1.142 | 0.72 |
| 95_Y | 120_T | 1.142 | 0.72 |
| 96_Y | 207_H | 1.141 | 0.72 |
| 241_C | 247_P | 1.125 | 0.70 |
| 282_F | 287_S | 1.121 | 0.70 |
| 95_Y | 244_A | 1.113 | 0.69 |
| 229_D | 232_R | 1.111 | 0.69 |
| 22_F | 37_V | 1.110 | 0.68 |
| 132_I | 150_V | 1.108 | 0.68 |
| 19_C | 39_C | 1.107 | 0.68 |
| 117_S | 154_F | 1.106 | 0.68 |
| 160_P | 174_C | 1.106 | 0.68 |
| 228_L | 318_E | 1.105 | 0.68 |
| 293_L | 298_S | 1.103 | 0.68 |
| 194_C | 200_G | 1.098 | 0.67 |
| 125_S | 188_Y | 1.095 | 0.67 |
| 95_Y | 188_Y | 1.091 | 0.67 |
| 233_K | 237_E | 1.090 | 0.66 |
| 52_I | 60_V | 1.083 | 0.66 |
| 97_A | 120_T | 1.082 | 0.66 |
| 124_R | 186_F | 1.075 | 0.65 |
| 35_P | 266_L | 1.063 | 0.64 |
| 43_A | 205_V | 1.053 | 0.63 |
| 135_L | 205_V | 1.049 | 0.62 |
| 244_A | 249_H | 1.049 | 0.62 |
| 104_D | 197_D | 1.046 | 0.62 |
| 209_T | 249_H | 1.045 | 0.62 |
| 76_N | 255_S | 1.041 | 0.61 |
| 125_S | 133_G | 1.040 | 0.61 |
| 117_S | 120_T | 1.035 | 0.61 |
| 36_S | 55_N | 1.035 | 0.61 |
| 19_C | 48_C | 1.034 | 0.60 |
| 150_V | 154_F | 1.032 | 0.60 |
| 226_L | 229_D | 1.031 | 0.60 |
| 116_K | 188_Y | 1.029 | 0.60 |
| 32_S | 286_S | 1.024 | 0.59 |
| 225_L | 238_Y | 1.023 | 0.59 |
| 117_S | 155_S | 1.021 | 0.59 |
| 49_I | 62_L | 1.020 | 0.59 |
| 282_F | 295_F | 1.020 | 0.59 |
| 188_Y | 249_H | 1.014 | 0.58 |
| 7_R | 132_I | 1.013 | 0.58 |
| 125_S | 129_N | 1.008 | 0.58 |
| 263_I | 267_L | 1.005 | 0.57 |
| 295_F | 299_A | 1.005 | 0.57 |
| 118_C | 227_C | 1.003 | 0.57 |
| 102_K | 115_K | 1.002 | 0.57 |
| 174_C | 179_C | 1.002 | 0.57 |
| 132_I | 147_E | 1.001 | 0.57 |
| 210_I | 235_V | 1.000 | 0.57 |
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 | |
| 1cb6A | 1 | 0.9911 | 100 | 0.168 | Contact Map |
| 1blfA | 1 | 0.9763 | 100 | 0.18 | Contact Map |
| 1h45A | 1 | 0.9288 | 100 | 0.2 | Contact Map |
| 1ryoA | 1 | 0.9614 | 100 | 0.212 | Contact Map |
| 2d3iA | 1 | 0.9496 | 100 | 0.212 | Contact Map |
| 3v83A | 6 | 0.997 | 100 | 0.216 | Contact Map |
| 3mc2A | 4 | 0.9555 | 100 | 0.218 | Contact Map |
| 3todA | 1 | 0.9139 | 100 | 0.227 | Contact Map |
| 3skpA | 1 | 0.9318 | 100 | 0.246 | Contact Map |
| 1iejA | 1 | 0.9347 | 100 | 0.284 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)