| wspA |
| ID: | 1434470075 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 542 (540) | ||
| Sequences: | 5047 (4118.3) | ||
| Seq/Len: | 9.346 | ||
| Nf(neff/√len): | 177.2 |
HHblits Results: (2013_03)
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: 9.346).
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 |
| 141_R | 144_E | 4.571 | 1.00 |
| 242_R | 247_G | 4.018 | 1.00 |
| 228_L | 233_D | 3.497 | 1.00 |
| 5_T | 8_Q | 3.132 | 1.00 |
| 102_Q | 120_L | 3.045 | 1.00 |
| 92_E | 96_Q | 2.544 | 1.00 |
| 222_I | 250_E | 2.303 | 1.00 |
| 25_A | 197_L | 2.282 | 1.00 |
| 169_E | 173_D | 2.093 | 1.00 |
| 254_N | 257_A | 2.086 | 1.00 |
| 162_K | 166_E | 2.037 | 1.00 |
| 70_L | 137_Y | 2.017 | 1.00 |
| 421_T | 425_T | 2.004 | 1.00 |
| 191_L | 195_V | 1.998 | 1.00 |
| 151_G | 155_E | 1.996 | 1.00 |
| 117_A | 121_G | 1.992 | 1.00 |
| 227_D | 248_A | 1.991 | 1.00 |
| 213_R | 217_Q | 1.983 | 1.00 |
| 176_D | 180_E | 1.960 | 1.00 |
| 114_E | 118_G | 1.939 | 1.00 |
| 173_D | 177_R | 1.907 | 1.00 |
| 315_D | 318_R | 1.860 | 1.00 |
| 416_R | 419_D | 1.850 | 1.00 |
| 218_P | 245_E | 1.848 | 1.00 |
| 229_M | 256_M | 1.839 | 1.00 |
| 111_R | 114_E | 1.822 | 1.00 |
| 96_Q | 100_S | 1.820 | 1.00 |
| 322_E | 325_G | 1.815 | 1.00 |
| 7_R | 11_L | 1.815 | 1.00 |
| 228_L | 236_A | 1.804 | 1.00 |
| 99_A | 103_K | 1.803 | 1.00 |
| 26_A | 30_V | 1.789 | 1.00 |
| 132_K | 135_E | 1.772 | 1.00 |
| 135_E | 139_E | 1.769 | 1.00 |
| 95_D | 99_A | 1.768 | 1.00 |
| 215_I | 218_P | 1.766 | 1.00 |
| 9_R | 214_A | 1.761 | 1.00 |
| 75_D | 78_E | 1.752 | 1.00 |
| 88_L | 92_E | 1.731 | 1.00 |
| 80_S | 85_D | 1.720 | 1.00 |
| 36_E | 186_V | 1.720 | 1.00 |
| 458_A | 462_Q | 1.713 | 1.00 |
| 110_A | 113_H | 1.688 | 1.00 |
| 194_L | 198_L | 1.686 | 1.00 |
| 122_V | 163_Y | 1.682 | 1.00 |
| 222_I | 253_F | 1.661 | 1.00 |
| 244_D | 247_G | 1.660 | 1.00 |
| 351_V | 456_G | 1.656 | 1.00 |
| 350_H | 452_E | 1.653 | 1.00 |
| 136_L | 141_R | 1.649 | 1.00 |
| 227_D | 255_G | 1.628 | 1.00 |
| 39_A | 42_V | 1.619 | 1.00 |
| 226_L | 249_I | 1.613 | 1.00 |
| 180_E | 184_N | 1.603 | 1.00 |
| 45_D | 49_G | 1.603 | 1.00 |
| 40_Y | 44_D | 1.603 | 1.00 |
| 339_L | 343_R | 1.575 | 1.00 |
| 85_D | 89_A | 1.574 | 1.00 |
| 124_K | 128_E | 1.571 | 1.00 |
| 337_G | 470_I | 1.552 | 1.00 |
| 190_E | 194_L | 1.552 | 1.00 |
| 367_E | 370_G | 1.547 | 1.00 |
| 131_D | 135_E | 1.538 | 1.00 |
| 7_R | 212_L | 1.526 | 1.00 |
| 9_R | 244_D | 1.525 | 1.00 |
| 6_V | 219_I | 1.524 | 1.00 |
| 165_N | 169_E | 1.518 | 1.00 |
| 377_T | 381_K | 1.517 | 1.00 |
| 91_E | 131_D | 1.501 | 1.00 |
| 223_V | 252_G | 1.500 | 1.00 |
| 226_L | 252_G | 1.495 | 1.00 |
| 64_Y | 68_Q | 1.469 | 1.00 |
| 136_L | 144_E | 1.469 | 1.00 |
| 332_T | 336_S | 1.465 | 1.00 |
| 56_V | 94_L | 1.455 | 1.00 |
| 476_A | 479_P | 1.448 | 1.00 |
| 343_R | 462_Q | 1.447 | 1.00 |
| 163_Y | 166_E | 1.447 | 1.00 |
| 113_H | 117_A | 1.446 | 1.00 |
| 186_V | 190_E | 1.441 | 1.00 |
| 118_G | 122_V | 1.438 | 1.00 |
| 212_L | 216_T | 1.437 | 1.00 |
| 21_M | 24_M | 1.421 | 0.99 |
| 119_F | 160_G | 1.419 | 0.99 |
| 132_K | 152_P | 1.419 | 0.99 |
| 345_E | 464_G | 1.414 | 0.99 |
| 226_L | 253_F | 1.413 | 0.99 |
| 504_Q | 507_E | 1.413 | 0.99 |
| 121_G | 125_A | 1.412 | 0.99 |
| 11_L | 212_L | 1.409 | 0.99 |
| 118_G | 163_Y | 1.407 | 0.99 |
| 177_R | 181_N | 1.402 | 0.99 |
| 13_S | 17_I | 1.399 | 0.99 |
| 465_E | 468_S | 1.395 | 0.99 |
| 99_A | 102_Q | 1.392 | 0.99 |
| 93_R | 96_Q | 1.384 | 0.99 |
| 110_A | 114_E | 1.381 | 0.99 |
| 454_R | 458_A | 1.379 | 0.99 |
| 248_A | 251_T | 1.374 | 0.99 |
| 89_A | 92_E | 1.367 | 0.99 |
| 489_Q | 493_T | 1.363 | 0.99 |
| 371_N | 374_Q | 1.363 | 0.99 |
| 100_S | 103_K | 1.351 | 0.99 |
| 89_A | 93_R | 1.351 | 0.99 |
| 237_R | 261_K | 1.345 | 0.99 |
| 120_L | 124_K | 1.341 | 0.99 |
| 147_K | 151_G | 1.331 | 0.99 |
| 132_K | 136_L | 1.330 | 0.99 |
| 192_S | 195_V | 1.329 | 0.99 |
| 14_F | 17_I | 1.326 | 0.99 |
| 245_E | 248_A | 1.325 | 0.99 |
| 49_G | 101_Y | 1.322 | 0.99 |
| 109_E | 112_D | 1.322 | 0.99 |
| 371_N | 427_D | 1.319 | 0.99 |
| 195_V | 199_L | 1.314 | 0.99 |
| 28_A | 193_M | 1.314 | 0.99 |
| 83_E | 138_R | 1.313 | 0.99 |
| 115_L | 170_L | 1.306 | 0.99 |
| 191_L | 194_L | 1.306 | 0.99 |
| 23_L | 27_T | 1.302 | 0.99 |
| 266_Q | 532_G | 1.299 | 0.99 |
| 227_D | 231_G | 1.296 | 0.99 |
| 95_D | 127_L | 1.295 | 0.99 |
| 262_G | 266_Q | 1.291 | 0.99 |
| 70_L | 83_E | 1.286 | 0.99 |
| 52_F | 100_S | 1.285 | 0.99 |
| 58_S | 61_T | 1.285 | 0.99 |
| 316_L | 488_M | 1.280 | 0.99 |
| 152_P | 155_E | 1.279 | 0.99 |
| 154_T | 158_R | 1.274 | 0.99 |
| 497_Q | 500_Q | 1.272 | 0.99 |
| 329_Q | 332_T | 1.271 | 0.99 |
| 420_Q | 427_D | 1.270 | 0.99 |
| 123_R | 160_G | 1.269 | 0.98 |
| 518_Q | 521_F | 1.259 | 0.98 |
| 531_N | 535_N | 1.257 | 0.98 |
| 348_M | 351_V | 1.256 | 0.98 |
| 465_E | 469_Q | 1.254 | 0.98 |
| 394_A | 412_T | 1.252 | 0.98 |
| 39_A | 182_I | 1.250 | 0.98 |
| 286_K | 290_A | 1.250 | 0.98 |
| 47_M | 50_M | 1.247 | 0.98 |
| 342_A | 346_E | 1.244 | 0.98 |
| 475_Q | 479_P | 1.244 | 0.98 |
| 188_D | 192_S | 1.241 | 0.98 |
| 24_M | 28_A | 1.235 | 0.98 |
| 237_R | 258_E | 1.235 | 0.98 |
| 280_E | 283_A | 1.235 | 0.98 |
| 333_L | 469_Q | 1.234 | 0.98 |
| 43_Q | 48_P | 1.233 | 0.98 |
| 18_I | 204_A | 1.233 | 0.98 |
| 491_Q | 494_G | 1.230 | 0.98 |
| 14_F | 208_G | 1.229 | 0.98 |
| 69_E | 72_G | 1.227 | 0.98 |
| 263_L | 267_A | 1.222 | 0.98 |
| 31_K | 189_A | 1.221 | 0.98 |
| 502_L | 505_L | 1.220 | 0.98 |
| 214_A | 218_P | 1.217 | 0.98 |
| 237_R | 254_N | 1.215 | 0.98 |
| 368_K | 438_A | 1.202 | 0.98 |
| 229_M | 257_A | 1.201 | 0.98 |
| 118_G | 166_E | 1.200 | 0.98 |
| 33_L | 190_E | 1.200 | 0.98 |
| 384_D | 395_I | 1.199 | 0.98 |
| 49_G | 171_N | 1.197 | 0.98 |
| 336_S | 339_L | 1.196 | 0.98 |
| 238_L | 254_N | 1.194 | 0.98 |
| 61_T | 65_L | 1.189 | 0.97 |
| 344_M | 460_V | 1.188 | 0.97 |
| 78_E | 81_K | 1.185 | 0.97 |
| 334_A | 471_I | 1.183 | 0.97 |
| 128_E | 131_D | 1.175 | 0.97 |
| 46_A | 174_I | 1.174 | 0.97 |
| 338_Q | 471_I | 1.164 | 0.97 |
| 280_E | 518_Q | 1.160 | 0.97 |
| 198_L | 202_V | 1.159 | 0.97 |
| 517_R | 521_F | 1.158 | 0.97 |
| 128_E | 132_K | 1.157 | 0.97 |
| 496_E | 499_N | 1.157 | 0.97 |
| 205_G | 209_F | 1.155 | 0.97 |
| 321_S | 489_Q | 1.153 | 0.97 |
| 43_Q | 175_A | 1.150 | 0.97 |
| 461_G | 465_E | 1.146 | 0.97 |
| 32_M | 35_V | 1.146 | 0.97 |
| 275_T | 279_T | 1.145 | 0.97 |
| 308_E | 311_A | 1.144 | 0.97 |
| 70_L | 79_L | 1.141 | 0.97 |
| 307_R | 311_A | 1.140 | 0.96 |
| 256_M | 260_L | 1.136 | 0.96 |
| 453_V | 456_G | 1.134 | 0.96 |
| 27_T | 31_K | 1.133 | 0.96 |
| 47_M | 175_A | 1.132 | 0.96 |
| 118_G | 121_G | 1.131 | 0.96 |
| 6_V | 215_I | 1.126 | 0.96 |
| 224_R | 228_L | 1.123 | 0.96 |
| 200_A | 204_A | 1.123 | 0.96 |
| 35_V | 39_A | 1.122 | 0.96 |
| 144_E | 147_K | 1.120 | 0.96 |
| 98_I | 102_Q | 1.119 | 0.96 |
| 21_M | 200_A | 1.116 | 0.96 |
| 525_E | 528_L | 1.115 | 0.96 |
| 49_G | 112_D | 1.115 | 0.96 |
| 96_Q | 99_A | 1.114 | 0.96 |
| 258_E | 262_G | 1.113 | 0.96 |
| 17_I | 204_A | 1.109 | 0.96 |
| 514_E | 518_Q | 1.108 | 0.96 |
| 31_K | 34_T | 1.108 | 0.96 |
| 250_E | 254_N | 1.108 | 0.96 |
| 204_A | 208_G | 1.107 | 0.96 |
| 158_R | 162_K | 1.106 | 0.96 |
| 65_L | 69_E | 1.105 | 0.96 |
| 224_R | 227_D | 1.104 | 0.96 |
| 97_Q | 100_S | 1.103 | 0.96 |
| 117_A | 120_L | 1.103 | 0.96 |
| 254_N | 258_E | 1.102 | 0.96 |
| 415_R | 420_Q | 1.101 | 0.95 |
| 226_L | 256_M | 1.101 | 0.95 |
| 172_K | 176_D | 1.094 | 0.95 |
| 336_S | 469_Q | 1.093 | 0.95 |
| 304_A | 308_E | 1.093 | 0.95 |
| 10_I | 14_F | 1.091 | 0.95 |
| 318_R | 322_E | 1.091 | 0.95 |
| 210_L | 213_R | 1.089 | 0.95 |
| 349_H | 461_G | 1.088 | 0.95 |
| 155_E | 159_D | 1.086 | 0.95 |
| 237_R | 257_A | 1.086 | 0.95 |
| 68_Q | 72_G | 1.083 | 0.95 |
| 246_F | 250_E | 1.080 | 0.95 |
| 182_I | 186_V | 1.074 | 0.95 |
| 325_G | 328_E | 1.074 | 0.95 |
| 369_A | 435_I | 1.073 | 0.95 |
| 219_I | 249_I | 1.072 | 0.95 |
| 223_V | 248_A | 1.072 | 0.95 |
| 159_D | 163_Y | 1.071 | 0.95 |
| 81_K | 85_D | 1.071 | 0.95 |
| 13_S | 20_I | 1.068 | 0.94 |
| 297_A | 301_E | 1.068 | 0.94 |
| 222_I | 249_I | 1.068 | 0.94 |
| 229_M | 253_F | 1.066 | 0.94 |
| 32_M | 186_V | 1.063 | 0.94 |
| 373_N | 436_Q | 1.060 | 0.94 |
| 83_E | 88_L | 1.059 | 0.94 |
| 91_E | 95_D | 1.058 | 0.94 |
| 497_Q | 501_A | 1.056 | 0.94 |
| 388_L | 395_I | 1.055 | 0.94 |
| 18_I | 21_M | 1.055 | 0.94 |
| 148_L | 152_P | 1.055 | 0.94 |
| 299_T | 302_I | 1.053 | 0.94 |
| 335_G | 339_L | 1.052 | 0.94 |
| 276_T | 280_E | 1.052 | 0.94 |
| 507_E | 511_Q | 1.048 | 0.94 |
| 179_S | 183_V | 1.047 | 0.94 |
| 187_D | 191_L | 1.047 | 0.94 |
| 127_L | 131_D | 1.046 | 0.94 |
| 233_D | 236_A | 1.045 | 0.94 |
| 40_Y | 183_V | 1.043 | 0.93 |
| 57_R | 61_T | 1.042 | 0.93 |
| 85_D | 88_L | 1.039 | 0.93 |
| 181_N | 185_A | 1.038 | 0.93 |
| 340_G | 459_E | 1.035 | 0.93 |
| 43_Q | 49_G | 1.033 | 0.93 |
| 223_V | 227_D | 1.032 | 0.93 |
| 5_T | 248_A | 1.032 | 0.93 |
| 4_W | 8_Q | 1.032 | 0.93 |
| 314_R | 318_R | 1.031 | 0.93 |
| 487_G | 491_Q | 1.031 | 0.93 |
| 419_D | 423_V | 1.030 | 0.93 |
| 241_G | 247_G | 1.029 | 0.93 |
| 281_I | 285_S | 1.028 | 0.93 |
| 335_G | 475_Q | 1.027 | 0.93 |
| 220_Q | 245_E | 1.027 | 0.93 |
| 394_A | 415_R | 1.027 | 0.93 |
| 125_A | 159_D | 1.026 | 0.93 |
| 346_E | 350_H | 1.026 | 0.93 |
| 223_V | 249_I | 1.023 | 0.93 |
| 232_G | 249_I | 1.022 | 0.93 |
| 64_Y | 157_W | 1.019 | 0.92 |
| 148_L | 151_G | 1.019 | 0.92 |
| 242_R | 245_E | 1.018 | 0.92 |
| 73_V | 78_E | 1.018 | 0.92 |
| 412_T | 415_R | 1.018 | 0.92 |
| 276_T | 283_A | 1.017 | 0.92 |
| 30_V | 34_T | 1.016 | 0.92 |
| 82_A | 86_S | 1.014 | 0.92 |
| 135_E | 138_R | 1.014 | 0.92 |
| 208_G | 212_L | 1.013 | 0.92 |
| 181_N | 184_N | 1.013 | 0.92 |
| 251_T | 254_N | 1.011 | 0.92 |
| 240_L | 254_N | 1.009 | 0.92 |
| 133_V | 145_A | 1.006 | 0.92 |
| 111_R | 170_L | 1.005 | 0.92 |
| 336_S | 462_Q | 1.004 | 0.92 |
| 209_F | 213_R | 1.003 | 0.92 |
| 532_G | 535_N | 1.003 | 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 | |
| 3zx6A | 2 | 0.5572 | 100 | 0.42 | Contact Map |
| 1qu7A | 2 | 0.4133 | 100 | 0.54 | Contact Map |
| 2ch7A | 1 | 0.5443 | 100 | 0.551 | Contact Map |
| 3g67A | 2 | 0.3856 | 100 | 0.632 | Contact Map |
| 4i3mA | 1 | 0.2694 | 100 | 0.756 | Contact Map |
| 2d4uA | 2 | 0.2915 | 99.4 | 0.872 | Contact Map |
| 4cq4A | 4 | 0.1808 | 99.3 | 0.876 | Contact Map |
| 2f95B | 1 | 0.0978 | 99.3 | 0.877 | Contact Map |
| 2ligA | 2 | 0.2768 | 99.2 | 0.878 | Contact Map |
| 3zccA | 2 | 0.1937 | 99.1 | 0.887 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)