| CARESD |
| ID: | 1464817767 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 435 (403) | ||
| Sequences: | 999 (708.3) | ||
| Seq/Len: | 2.479 | ||
| Nf(neff/√len): | 35.3 |
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: 2.479).
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 |
| 392_Y | 417_P | 4.060 | 1.00 |
| 167_S | 186_F | 2.725 | 1.00 |
| 410_N | 414_S | 2.549 | 1.00 |
| 291_W | 295_R | 2.405 | 1.00 |
| 62_L | 93_W | 2.316 | 1.00 |
| 289_D | 305_K | 2.302 | 1.00 |
| 63_V | 170_L | 2.260 | 1.00 |
| 184_Q | 188_A | 2.246 | 1.00 |
| 273_P | 276_G | 2.202 | 1.00 |
| 252_K | 256_Y | 2.174 | 1.00 |
| 183_F | 187_Q | 2.147 | 1.00 |
| 300_S | 304_R | 2.138 | 1.00 |
| 413_N | 418_M | 1.967 | 0.99 |
| 347_G | 351_W | 1.950 | 0.99 |
| 20_F | 264_S | 1.907 | 0.99 |
| 350_C | 417_P | 1.886 | 0.99 |
| 401_S | 404_S | 1.870 | 0.99 |
| 366_N | 379_R | 1.856 | 0.99 |
| 69_C | 89_F | 1.845 | 0.99 |
| 414_S | 417_P | 1.843 | 0.99 |
| 334_S | 338_H | 1.813 | 0.99 |
| 25_L | 30_C | 1.771 | 0.98 |
| 41_Y | 186_F | 1.729 | 0.98 |
| 69_C | 73_L | 1.728 | 0.98 |
| 306_W | 314_L | 1.700 | 0.98 |
| 95_T | 340_L | 1.679 | 0.97 |
| 306_W | 334_S | 1.624 | 0.96 |
| 331_F | 334_S | 1.618 | 0.96 |
| 314_L | 330_T | 1.611 | 0.96 |
| 402_L | 406_W | 1.606 | 0.96 |
| 255_Y | 259_W | 1.604 | 0.96 |
| 252_K | 294_E | 1.560 | 0.95 |
| 132_S | 180_L | 1.544 | 0.95 |
| 277_Q | 280_G | 1.540 | 0.95 |
| 236_Q | 242_Y | 1.540 | 0.95 |
| 383_W | 387_Q | 1.519 | 0.94 |
| 322_S | 329_Q | 1.506 | 0.94 |
| 344_Q | 348_F | 1.493 | 0.94 |
| 347_G | 396_A | 1.493 | 0.94 |
| 67_A | 169_L | 1.461 | 0.93 |
| 217_C | 220_V | 1.457 | 0.93 |
| 61_V | 65_T | 1.455 | 0.92 |
| 64_F | 68_V | 1.446 | 0.92 |
| 343_G | 348_F | 1.428 | 0.92 |
| 289_D | 292_T | 1.414 | 0.91 |
| 86_T | 134_S | 1.409 | 0.91 |
| 335_A | 338_H | 1.396 | 0.90 |
| 66_P | 123_L | 1.389 | 0.90 |
| 68_V | 162_A | 1.388 | 0.90 |
| 289_D | 308_Q | 1.381 | 0.90 |
| 274_E | 283_G | 1.381 | 0.90 |
| 362_H | 366_N | 1.369 | 0.89 |
| 307_N | 313_W | 1.363 | 0.89 |
| 337_W | 344_Q | 1.353 | 0.88 |
| 319_F | 345_V | 1.352 | 0.88 |
| 230_A | 235_C | 1.349 | 0.88 |
| 263_D | 267_H | 1.347 | 0.88 |
| 161_K | 164_P | 1.334 | 0.87 |
| 205_L | 264_S | 1.331 | 0.87 |
| 23_A | 172_F | 1.330 | 0.87 |
| 129_R | 167_S | 1.324 | 0.87 |
| 337_W | 343_G | 1.323 | 0.87 |
| 264_S | 268_A | 1.312 | 0.86 |
| 74_L | 133_L | 1.307 | 0.86 |
| 226_V | 242_Y | 1.306 | 0.86 |
| 362_H | 369_I | 1.304 | 0.86 |
| 136_D | 182_S | 1.300 | 0.86 |
| 238_F | 242_Y | 1.299 | 0.85 |
| 183_F | 252_K | 1.299 | 0.85 |
| 170_L | 175_L | 1.296 | 0.85 |
| 149_F | 152_R | 1.293 | 0.85 |
| 133_L | 156_S | 1.282 | 0.84 |
| 97_C | 123_L | 1.276 | 0.84 |
| 302_F | 390_I | 1.270 | 0.84 |
| 314_L | 334_S | 1.259 | 0.83 |
| 350_C | 393_I | 1.252 | 0.82 |
| 318_V | 333_F | 1.251 | 0.82 |
| 70_A | 90_Q | 1.248 | 0.82 |
| 125_L | 130_V | 1.248 | 0.82 |
| 70_A | 86_T | 1.245 | 0.82 |
| 248_A | 254_T | 1.238 | 0.81 |
| 256_Y | 334_S | 1.236 | 0.81 |
| 20_F | 23_A | 1.236 | 0.81 |
| 375_R | 379_R | 1.235 | 0.81 |
| 370_R | 377_F | 1.227 | 0.81 |
| 66_P | 70_A | 1.226 | 0.81 |
| 98_H | 124_M | 1.223 | 0.80 |
| 139_E | 321_H | 1.218 | 0.80 |
| 256_Y | 294_E | 1.214 | 0.80 |
| 123_L | 130_V | 1.214 | 0.80 |
| 331_F | 355_V | 1.210 | 0.79 |
| 109_H | 341_H | 1.202 | 0.79 |
| 69_C | 239_E | 1.201 | 0.79 |
| 340_L | 345_V | 1.197 | 0.78 |
| 54_A | 57_G | 1.195 | 0.78 |
| 315_R | 320_Q | 1.192 | 0.78 |
| 124_M | 306_W | 1.191 | 0.78 |
| 256_Y | 306_W | 1.179 | 0.77 |
| 362_H | 379_R | 1.165 | 0.76 |
| 350_C | 392_Y | 1.163 | 0.76 |
| 259_W | 348_F | 1.163 | 0.76 |
| 236_Q | 239_E | 1.163 | 0.76 |
| 337_W | 348_F | 1.162 | 0.75 |
| 133_L | 137_I | 1.161 | 0.75 |
| 349_V | 353_V | 1.160 | 0.75 |
| 259_W | 287_D | 1.158 | 0.75 |
| 335_A | 345_V | 1.157 | 0.75 |
| 248_A | 394_M | 1.156 | 0.75 |
| 408_L | 412_Y | 1.155 | 0.75 |
| 338_H | 343_G | 1.148 | 0.74 |
| 171_F | 174_A | 1.144 | 0.74 |
| 266_L | 274_E | 1.143 | 0.74 |
| 303_S | 347_G | 1.136 | 0.73 |
| 409_C | 414_S | 1.133 | 0.73 |
| 132_S | 317_L | 1.126 | 0.72 |
| 150_R | 153_S | 1.124 | 0.72 |
| 338_H | 348_F | 1.122 | 0.72 |
| 226_V | 236_Q | 1.118 | 0.71 |
| 341_H | 344_Q | 1.118 | 0.71 |
| 179_S | 186_F | 1.117 | 0.71 |
| 419_V | 422_I | 1.115 | 0.71 |
| 124_M | 334_S | 1.114 | 0.71 |
| 333_F | 351_W | 1.111 | 0.71 |
| 389_I | 416_F | 1.110 | 0.71 |
| 22_F | 172_F | 1.106 | 0.70 |
| 129_R | 182_S | 1.103 | 0.70 |
| 123_L | 128_Q | 1.100 | 0.70 |
| 342_P | 348_F | 1.096 | 0.69 |
| 331_F | 351_W | 1.095 | 0.69 |
| 335_A | 343_G | 1.090 | 0.69 |
| 370_R | 379_R | 1.090 | 0.69 |
| 389_I | 406_W | 1.089 | 0.68 |
| 212_I | 257_S | 1.089 | 0.68 |
| 91_M | 333_F | 1.089 | 0.68 |
| 389_I | 420_Y | 1.085 | 0.68 |
| 16_Q | 19_A | 1.083 | 0.68 |
| 121_S | 124_M | 1.081 | 0.68 |
| 396_A | 405_L | 1.079 | 0.67 |
| 298_R | 362_H | 1.076 | 0.67 |
| 122_S | 134_S | 1.076 | 0.67 |
| 321_H | 337_W | 1.070 | 0.67 |
| 339_G | 344_Q | 1.069 | 0.66 |
| 48_G | 57_G | 1.067 | 0.66 |
| 178_G | 186_F | 1.067 | 0.66 |
| 185_R | 188_A | 1.066 | 0.66 |
| 152_R | 216_E | 1.066 | 0.66 |
| 118_I | 124_M | 1.065 | 0.66 |
| 249_G | 252_K | 1.064 | 0.66 |
| 311_A | 326_P | 1.062 | 0.66 |
| 378_Y | 382_T | 1.062 | 0.66 |
| 136_D | 140_G | 1.061 | 0.66 |
| 66_P | 93_W | 1.059 | 0.65 |
| 277_Q | 281_E | 1.058 | 0.65 |
| 153_S | 361_I | 1.058 | 0.65 |
| 174_A | 266_L | 1.057 | 0.65 |
| 88_C | 96_L | 1.054 | 0.65 |
| 115_R | 124_M | 1.053 | 0.65 |
| 310_T | 321_H | 1.048 | 0.64 |
| 180_L | 331_F | 1.048 | 0.64 |
| 218_L | 239_E | 1.047 | 0.64 |
| 20_F | 54_A | 1.046 | 0.64 |
| 366_N | 369_I | 1.046 | 0.64 |
| 263_D | 272_G | 1.046 | 0.64 |
| 95_T | 341_H | 1.046 | 0.64 |
| 98_H | 101_L | 1.045 | 0.64 |
| 98_H | 115_R | 1.044 | 0.64 |
| 139_E | 259_W | 1.044 | 0.64 |
| 182_S | 185_R | 1.044 | 0.64 |
| 101_L | 111_P | 1.043 | 0.64 |
| 179_S | 183_F | 1.042 | 0.64 |
| 162_A | 175_L | 1.041 | 0.63 |
| 361_I | 365_A | 1.039 | 0.63 |
| 328_L | 352_A | 1.039 | 0.63 |
| 323_R | 326_P | 1.038 | 0.63 |
| 43_F | 47_G | 1.037 | 0.63 |
| 337_W | 345_V | 1.037 | 0.63 |
| 299_I | 303_S | 1.036 | 0.63 |
| 41_Y | 44_L | 1.035 | 0.63 |
| 137_I | 346_F | 1.034 | 0.63 |
| 152_R | 155_L | 1.034 | 0.63 |
| 15_Y | 18_A | 1.032 | 0.62 |
| 419_V | 424_L | 1.030 | 0.62 |
| 299_I | 354_M | 1.030 | 0.62 |
| 321_H | 344_Q | 1.027 | 0.62 |
| 129_R | 319_F | 1.023 | 0.61 |
| 124_M | 129_R | 1.022 | 0.61 |
| 161_K | 170_L | 1.021 | 0.61 |
| 176_L | 384_A | 1.021 | 0.61 |
| 331_F | 347_G | 1.017 | 0.61 |
| 129_R | 393_I | 1.016 | 0.61 |
| 50_A | 68_V | 1.014 | 0.60 |
| 73_L | 86_T | 1.014 | 0.60 |
| 132_S | 165_Y | 1.013 | 0.60 |
| 410_N | 418_M | 1.012 | 0.60 |
| 305_K | 326_P | 1.011 | 0.60 |
| 115_R | 119_T | 1.010 | 0.60 |
| 331_F | 352_A | 1.010 | 0.60 |
| 14_F | 18_A | 1.008 | 0.60 |
| 98_H | 119_T | 1.008 | 0.60 |
| 99_L | 103_Y | 1.008 | 0.60 |
| 251_F | 254_T | 1.006 | 0.59 |
| 147_G | 151_S | 1.005 | 0.59 |
| 306_W | 352_A | 1.003 | 0.59 |
| 95_T | 102_H | 1.003 | 0.59 |
| 112_P | 119_T | 1.000 | 0.59 |
| 290_I | 294_E | 1.000 | 0.59 |
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 | |
| 4ogqE | 1 | 0.0713 | 3.5 | 0.982 | Contact Map |
| 1q90L | 1 | 0.0736 | 2.7 | 0.983 | Contact Map |
| 4v1aq | 1 | 0.0851 | 2 | 0.984 | Contact Map |
| 2mofA | 1 | 0.0966 | 1.7 | 0.984 | Contact Map |
| 2ls4A | 1 | 0.0552 | 1.4 | 0.985 | Contact Map |
| 4niqC | 2 | 0.0506 | 1.3 | 0.986 | Contact Map |
| 3qilA | 24 | 0.0966 | 1.2 | 0.986 | Contact Map |
| 1wn8A | 1 | 0.0506 | 1.1 | 0.986 | Contact Map |
| 3pfzA | 1 | 0.1356 | 1 | 0.986 | Contact Map |
| 2jujA | 1 | 0.1126 | 1 | 0.986 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)