| biarpi_160-611 |
| ID: | 1494428704 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 452 (426) | ||
| Sequences: | 39431 (36506.1) | ||
| Seq/Len: | 92.561 | ||
| Nf(neff/√len): | 1768.7 |
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: 92.561).
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 |
| 326_I | 329_K | 1.805 | 1.00 |
| 256_R | 260_T | 1.760 | 1.00 |
| 179_I | 182_R | 1.729 | 1.00 |
| 105_N | 108_L | 1.707 | 1.00 |
| 112_I | 115_L | 1.692 | 1.00 |
| 382_A | 386_R | 1.609 | 1.00 |
| 256_R | 259_L | 1.594 | 1.00 |
| 386_R | 390_E | 1.585 | 1.00 |
| 217_K | 221_Y | 1.583 | 1.00 |
| 126_V | 129_Q | 1.581 | 1.00 |
| 105_N | 109_Q | 1.580 | 1.00 |
| 182_R | 186_I | 1.578 | 1.00 |
| 69_N | 72_Q | 1.577 | 1.00 |
| 228_V | 231_M | 1.557 | 1.00 |
| 393_L | 396_S | 1.553 | 1.00 |
| 69_N | 73_A | 1.535 | 1.00 |
| 228_V | 232_R | 1.533 | 1.00 |
| 48_R | 51_E | 1.531 | 1.00 |
| 263_L | 267_K | 1.525 | 1.00 |
| 200_H | 204_Q | 1.495 | 1.00 |
| 291_L | 294_K | 1.494 | 1.00 |
| 200_H | 203_Y | 1.490 | 1.00 |
| 372_V | 375_L | 1.483 | 1.00 |
| 273_K | 277_I | 1.466 | 1.00 |
| 235_L | 238_K | 1.465 | 1.00 |
| 133_L | 136_R | 1.465 | 1.00 |
| 242_I | 245_K | 1.451 | 1.00 |
| 319_L | 323_E | 1.446 | 1.00 |
| 119_I | 122_L | 1.443 | 1.00 |
| 284_I | 288_E | 1.442 | 1.00 |
| 421_W | 424_T | 1.432 | 1.00 |
| 294_K | 298_V | 1.421 | 1.00 |
| 193_M | 196_L | 1.417 | 1.00 |
| 312_H | 315_S | 1.416 | 1.00 |
| 207_I | 210_L | 1.396 | 0.99 |
| 400_L | 403_S | 1.395 | 0.99 |
| 263_L | 266_L | 1.392 | 0.99 |
| 315_S | 319_L | 1.391 | 0.99 |
| 188_A | 192_K | 1.381 | 0.99 |
| 329_K | 333_M | 1.378 | 0.99 |
| 284_I | 287_L | 1.377 | 0.99 |
| 172_L | 176_R | 1.375 | 0.99 |
| 351_R | 355_E | 1.375 | 0.99 |
| 65_L | 69_N | 1.372 | 0.99 |
| 174_E | 178_E | 1.370 | 0.99 |
| 410_A | 414_M | 1.368 | 0.99 |
| 140_I | 143_L | 1.367 | 0.99 |
| 126_V | 130_K | 1.365 | 0.99 |
| 414_M | 417_S | 1.357 | 0.99 |
| 428_I | 431_L | 1.354 | 0.99 |
| 98_M | 101_I | 1.352 | 0.99 |
| 221_Y | 225_Q | 1.347 | 0.99 |
| 388_R | 392_K | 1.339 | 0.99 |
| 396_S | 400_L | 1.335 | 0.99 |
| 186_I | 190_A | 1.333 | 0.99 |
| 186_I | 189_M | 1.331 | 0.99 |
| 300_M | 304_R | 1.331 | 0.99 |
| 206_H | 211_K | 1.329 | 0.99 |
| 358_V | 361_Y | 1.329 | 0.99 |
| 374_K | 378_R | 1.327 | 0.99 |
| 365_L | 368_A | 1.327 | 0.99 |
| 230_E | 234_R | 1.325 | 0.99 |
| 333_M | 337_R | 1.325 | 0.99 |
| 365_L | 369_E | 1.323 | 0.99 |
| 209_V | 213_S | 1.322 | 0.99 |
| 298_V | 301_A | 1.314 | 0.99 |
| 108_L | 112_I | 1.313 | 0.99 |
| 298_V | 302_R | 1.311 | 0.99 |
| 62_L | 65_L | 1.306 | 0.99 |
| 112_I | 116_R | 1.304 | 0.99 |
| 321_S | 325_A | 1.291 | 0.99 |
| 329_K | 332_Q | 1.291 | 0.99 |
| 319_L | 322_L | 1.288 | 0.99 |
| 402_K | 406_E | 1.279 | 0.99 |
| 160_M | 164_M | 1.271 | 0.99 |
| 427_R | 432_E | 1.265 | 0.99 |
| 258_R | 262_E | 1.264 | 0.99 |
| 340_R | 344_E | 1.263 | 0.99 |
| 318_A | 323_E | 1.262 | 0.99 |
| 207_I | 211_K | 1.260 | 0.99 |
| 400_L | 404_K | 1.259 | 0.99 |
| 172_L | 175_F | 1.256 | 0.99 |
| 214_L | 217_K | 1.253 | 0.99 |
| 277_I | 280_L | 1.253 | 0.99 |
| 249_T | 252_T | 1.250 | 0.99 |
| 372_V | 376_Q | 1.247 | 0.99 |
| 265_E | 269_H | 1.244 | 0.98 |
| 279_V | 283_K | 1.243 | 0.98 |
| 171_Q | 176_R | 1.238 | 0.98 |
| 128_T | 132_T | 1.237 | 0.98 |
| 358_V | 362_K | 1.235 | 0.98 |
| 140_I | 144_L | 1.231 | 0.98 |
| 234_R | 239_N | 1.228 | 0.98 |
| 407_L | 410_A | 1.224 | 0.98 |
| 249_T | 253_V | 1.223 | 0.98 |
| 235_L | 239_N | 1.223 | 0.98 |
| 277_I | 281_Q | 1.219 | 0.98 |
| 245_K | 249_T | 1.217 | 0.98 |
| 55_Y | 58_I | 1.216 | 0.98 |
| 137_D | 141_K | 1.212 | 0.98 |
| 379_L | 382_A | 1.211 | 0.98 |
| 142_K | 146_M | 1.209 | 0.98 |
| 305_L | 308_M | 1.209 | 0.98 |
| 286_N | 290_L | 1.207 | 0.98 |
| 158_R | 162_Q | 1.206 | 0.98 |
| 75_L | 80_E | 1.204 | 0.98 |
| 238_K | 242_I | 1.201 | 0.98 |
| 312_H | 316_E | 1.200 | 0.98 |
| 165_Q | 168_A | 1.193 | 0.98 |
| 220_H | 223_M | 1.189 | 0.98 |
| 318_A | 321_S | 1.187 | 0.98 |
| 414_M | 418_S | 1.187 | 0.98 |
| 165_Q | 169_Q | 1.184 | 0.98 |
| 270_M | 273_K | 1.179 | 0.98 |
| 417_S | 421_W | 1.177 | 0.98 |
| 307_A | 311_H | 1.173 | 0.98 |
| 136_R | 140_I | 1.172 | 0.98 |
| 248_G | 251_Q | 1.170 | 0.97 |
| 97_Q | 100_A | 1.168 | 0.97 |
| 115_L | 119_I | 1.168 | 0.97 |
| 139_S | 144_L | 1.165 | 0.97 |
| 360_D | 364_K | 1.163 | 0.97 |
| 295_D | 299_D | 1.163 | 0.97 |
| 76_V | 79_L | 1.158 | 0.97 |
| 268_D | 272_I | 1.157 | 0.97 |
| 173_D | 176_R | 1.155 | 0.97 |
| 333_M | 336_L | 1.144 | 0.97 |
| 421_W | 425_K | 1.143 | 0.97 |
| 122_L | 126_V | 1.142 | 0.97 |
| 325_A | 329_K | 1.139 | 0.97 |
| 351_R | 354_H | 1.138 | 0.97 |
| 168_A | 172_L | 1.137 | 0.97 |
| 326_I | 330_E | 1.136 | 0.97 |
| 350_E | 353_L | 1.135 | 0.97 |
| 149_A | 153_G | 1.135 | 0.97 |
| 399_E | 404_K | 1.133 | 0.97 |
| 167_M | 171_Q | 1.133 | 0.97 |
| 251_Q | 255_E | 1.131 | 0.97 |
| 335_Q | 339_Q | 1.131 | 0.97 |
| 206_H | 209_V | 1.130 | 0.97 |
| 107_H | 111_E | 1.129 | 0.97 |
| 375_L | 379_L | 1.129 | 0.97 |
| 221_Y | 224_L | 1.128 | 0.97 |
| 391_I | 395_A | 1.128 | 0.97 |
| 386_R | 389_L | 1.128 | 0.97 |
| 393_L | 397_Q | 1.127 | 0.97 |
| 83_L | 86_R | 1.124 | 0.97 |
| 111_E | 116_R | 1.123 | 0.97 |
| 198_E | 202_D | 1.123 | 0.97 |
| 171_Q | 174_E | 1.121 | 0.97 |
| 354_H | 358_V | 1.121 | 0.97 |
| 332_Q | 335_Q | 1.120 | 0.96 |
| 93_E | 97_Q | 1.120 | 0.96 |
| 262_E | 267_K | 1.120 | 0.96 |
| 273_K | 276_K | 1.118 | 0.96 |
| 334_A | 337_R | 1.115 | 0.96 |
| 332_Q | 337_R | 1.114 | 0.96 |
| 220_H | 225_Q | 1.114 | 0.96 |
| 357_E | 360_D | 1.112 | 0.96 |
| 125_R | 130_K | 1.107 | 0.96 |
| 223_M | 227_D | 1.107 | 0.96 |
| 150_K | 153_G | 1.106 | 0.96 |
| 330_E | 334_A | 1.104 | 0.96 |
| 217_K | 220_H | 1.102 | 0.96 |
| 229_E | 232_R | 1.100 | 0.96 |
| 416_R | 420_D | 1.100 | 0.96 |
| 179_I | 183_D | 1.097 | 0.96 |
| 185_E | 190_A | 1.097 | 0.96 |
| 276_K | 281_Q | 1.096 | 0.96 |
| 96_Q | 100_A | 1.095 | 0.96 |
| 106_D | 109_Q | 1.093 | 0.96 |
| 371_E | 374_K | 1.092 | 0.96 |
| 76_V | 80_E | 1.091 | 0.96 |
| 211_K | 215_C | 1.090 | 0.96 |
| 435_N | 438_L | 1.090 | 0.96 |
| 340_R | 343_A | 1.087 | 0.96 |
| 255_E | 260_T | 1.084 | 0.96 |
| 193_M | 197_E | 1.081 | 0.95 |
| 192_K | 197_E | 1.081 | 0.95 |
| 283_K | 288_E | 1.081 | 0.95 |
| 245_K | 248_G | 1.080 | 0.95 |
| 385_E | 390_E | 1.077 | 0.95 |
| 250_L | 253_V | 1.076 | 0.95 |
| 100_A | 104_E | 1.076 | 0.95 |
| 248_G | 253_V | 1.073 | 0.95 |
| 199_Q | 202_D | 1.073 | 0.95 |
| 54_K | 59_N | 1.073 | 0.95 |
| 304_R | 309_Q | 1.073 | 0.95 |
| 236_E | 239_N | 1.072 | 0.95 |
| 144_L | 148_Q | 1.072 | 0.95 |
| 131_Q | 135_A | 1.069 | 0.95 |
| 285_E | 288_E | 1.068 | 0.95 |
| 294_K | 297_Q | 1.068 | 0.95 |
| 283_K | 286_N | 1.066 | 0.95 |
| 424_T | 428_I | 1.066 | 0.95 |
| 208_A | 212_E | 1.064 | 0.95 |
| 364_K | 367_A | 1.063 | 0.95 |
| 382_A | 385_E | 1.056 | 0.95 |
| 125_R | 128_T | 1.056 | 0.95 |
| 242_I | 246_T | 1.056 | 0.95 |
| 132_T | 136_R | 1.055 | 0.95 |
| 338_D | 342_R | 1.054 | 0.95 |
| 234_R | 238_K | 1.051 | 0.94 |
| 325_A | 328_D | 1.051 | 0.94 |
| 61_Q | 64_L | 1.051 | 0.94 |
| 260_T | 264_T | 1.051 | 0.94 |
| 259_L | 263_L | 1.049 | 0.94 |
| 412_C | 416_R | 1.048 | 0.94 |
| 364_K | 369_E | 1.047 | 0.94 |
| 141_K | 144_L | 1.046 | 0.94 |
| 257_N | 260_T | 1.044 | 0.94 |
| 276_K | 279_V | 1.044 | 0.94 |
| 370_S | 374_K | 1.043 | 0.94 |
| 367_A | 371_E | 1.042 | 0.94 |
| 139_S | 142_K | 1.041 | 0.94 |
| 262_E | 265_E | 1.040 | 0.94 |
| 267_K | 271_D | 1.038 | 0.94 |
| 114_I | 118_T | 1.037 | 0.94 |
| 185_E | 188_A | 1.037 | 0.94 |
| 293_E | 297_Q | 1.036 | 0.94 |
| 192_K | 195_T | 1.036 | 0.94 |
| 385_E | 388_R | 1.036 | 0.94 |
| 219_E | 223_M | 1.033 | 0.94 |
| 63_K | 66_S | 1.033 | 0.94 |
| 48_R | 52_S | 1.033 | 0.94 |
| 297_Q | 300_M | 1.032 | 0.94 |
| 169_Q | 173_D | 1.032 | 0.94 |
| 405_A | 409_K | 1.031 | 0.94 |
| 194_K | 197_E | 1.030 | 0.94 |
| 255_E | 258_R | 1.030 | 0.94 |
| 187_L | 190_A | 1.028 | 0.94 |
| 297_Q | 302_R | 1.028 | 0.94 |
| 178_E | 182_R | 1.028 | 0.94 |
| 317_G | 321_S | 1.027 | 0.94 |
| 116_R | 120_K | 1.027 | 0.94 |
| 148_Q | 152_M | 1.025 | 0.93 |
| 129_Q | 133_L | 1.024 | 0.93 |
| 305_L | 309_Q | 1.024 | 0.93 |
| 202_D | 206_H | 1.022 | 0.93 |
| 145_E | 149_A | 1.022 | 0.93 |
| 264_T | 267_K | 1.019 | 0.93 |
| 62_L | 66_S | 1.018 | 0.93 |
| 150_K | 154_K | 1.016 | 0.93 |
| 426_Q | 430_R | 1.015 | 0.93 |
| 252_T | 256_R | 1.015 | 0.93 |
| 130_K | 134_I | 1.015 | 0.93 |
| 201_Q | 204_Q | 1.013 | 0.93 |
| 234_R | 237_E | 1.011 | 0.93 |
| 136_R | 139_S | 1.011 | 0.93 |
| 377_T | 381_R | 1.010 | 0.93 |
| 216_A | 220_H | 1.009 | 0.93 |
| 163_Q | 167_M | 1.009 | 0.93 |
| 91_N | 95_Q | 1.006 | 0.93 |
| 75_L | 78_Q | 1.004 | 0.93 |
| 132_T | 135_A | 1.004 | 0.93 |
| 110_R | 114_I | 1.003 | 0.93 |
| 430_R | 434_E | 1.001 | 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 | |
| 1i84S | 2 | 0.2102 | 99.5 | 0.549 | Contact Map |
| 1c1gA | 4 | 0.6283 | 99.3 | 0.6 | Contact Map |
| 4uxvA | 1 | 0.8938 | 97.6 | 0.77 | Contact Map |
| 2dfsA | 2 | 0.2743 | 96.8 | 0.797 | Contact Map |
| 4cgkA | 2 | 0.4624 | 96.8 | 0.798 | Contact Map |
| 2v71A | 2 | 0.3451 | 96.6 | 0.801 | Contact Map |
| 3o0zA | 4 | 0.3451 | 96.3 | 0.807 | Contact Map |
| 4iloA | 2 | 0.396 | 96.3 | 0.808 | Contact Map |
| 4ll8A | 1 | 0.1195 | 95.9 | 0.814 | Contact Map |
| 3na7A | 1 | 0.4049 | 95.8 | 0.816 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)