| mASIC1a |
| ID: | 1495577887 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 526 (455) | ||
| Sequences: | 2108 (1655.2) | ||
| Seq/Len: | 4.633 | ||
| Nf(neff/√len): | 77.6 |
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: 4.633).
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 |
| 172_C | 179_C | 4.238 | 1.00 |
| 312_C | 359_C | 3.847 | 1.00 |
| 361_C | 365_C | 3.214 | 1.00 |
| 91_T | 250_H | 2.376 | 1.00 |
| 435_G | 438_G | 2.324 | 1.00 |
| 288_G | 292_A | 2.171 | 1.00 |
| 424_Y | 432_D | 2.149 | 1.00 |
| 196_T | 250_H | 2.104 | 1.00 |
| 88_P | 93_C | 2.054 | 1.00 |
| 427_A | 431_G | 2.002 | 1.00 |
| 308_C | 323_C | 1.977 | 1.00 |
| 321_C | 343_C | 1.932 | 1.00 |
| 33_I | 50_F | 1.917 | 1.00 |
| 226_Q | 243_A | 1.914 | 1.00 |
| 447_T | 453_D | 1.907 | 1.00 |
| 434_G | 439_L | 1.895 | 1.00 |
| 435_G | 442_G | 1.875 | 1.00 |
| 308_C | 312_C | 1.863 | 1.00 |
| 213_G | 217_G | 1.857 | 1.00 |
| 64_R | 67_Y | 1.854 | 1.00 |
| 21_F | 25_S | 1.802 | 1.00 |
| 435_G | 439_L | 1.798 | 1.00 |
| 89_A | 196_T | 1.733 | 1.00 |
| 165_I | 169_L | 1.728 | 0.99 |
| 224_I | 245_I | 1.714 | 0.99 |
| 434_G | 442_G | 1.685 | 0.99 |
| 263_F | 273_V | 1.682 | 0.99 |
| 313_E | 325_M | 1.660 | 0.99 |
| 444_S | 447_T | 1.644 | 0.99 |
| 192_G | 198_N | 1.632 | 0.99 |
| 428_G | 432_D | 1.630 | 0.99 |
| 438_G | 444_S | 1.616 | 0.99 |
| 297_S | 311_D | 1.611 | 0.99 |
| 250_H | 256_P | 1.596 | 0.99 |
| 285_S | 288_G | 1.591 | 0.99 |
| 325_M | 328_M | 1.580 | 0.99 |
| 437_M | 443_A | 1.573 | 0.99 |
| 303_Y | 308_C | 1.573 | 0.99 |
| 435_G | 441_I | 1.562 | 0.99 |
| 438_G | 442_G | 1.558 | 0.99 |
| 283_L | 287_W | 1.537 | 0.99 |
| 432_D | 447_T | 1.535 | 0.99 |
| 444_S | 450_E | 1.532 | 0.99 |
| 359_C | 365_C | 1.522 | 0.98 |
| 163_H | 168_M | 1.511 | 0.98 |
| 333_P | 339_Q | 1.505 | 0.98 |
| 189_T | 192_G | 1.479 | 0.98 |
| 165_I | 180_S | 1.478 | 0.98 |
| 365_C | 370_Y | 1.466 | 0.98 |
| 310_I | 314_T | 1.466 | 0.98 |
| 179_C | 184_F | 1.456 | 0.98 |
| 435_G | 444_S | 1.454 | 0.98 |
| 297_S | 300_F | 1.450 | 0.98 |
| 447_T | 450_E | 1.442 | 0.98 |
| 247_V | 263_F | 1.436 | 0.97 |
| 439_L | 447_T | 1.434 | 0.97 |
| 438_G | 447_T | 1.434 | 0.97 |
| 442_G | 447_T | 1.425 | 0.97 |
| 21_F | 26_T | 1.424 | 0.97 |
| 251_S | 254_E | 1.418 | 0.97 |
| 290_C | 308_C | 1.410 | 0.97 |
| 414_N | 417_T | 1.406 | 0.97 |
| 420_Q | 453_D | 1.394 | 0.97 |
| 247_V | 265_V | 1.394 | 0.97 |
| 453_D | 457_E | 1.372 | 0.96 |
| 247_V | 406_L | 1.368 | 0.96 |
| 431_G | 453_D | 1.367 | 0.96 |
| 287_W | 422_K | 1.363 | 0.96 |
| 311_D | 314_T | 1.361 | 0.96 |
| 55_A | 59_C | 1.357 | 0.96 |
| 25_S | 28_H | 1.355 | 0.96 |
| 262_G | 268_G | 1.353 | 0.96 |
| 450_E | 454_Y | 1.349 | 0.96 |
| 157_F | 161_A | 1.341 | 0.96 |
| 437_M | 440_F | 1.340 | 0.96 |
| 312_C | 321_C | 1.331 | 0.96 |
| 314_T | 328_M | 1.327 | 0.95 |
| 423_A | 432_D | 1.325 | 0.95 |
| 431_G | 437_M | 1.316 | 0.95 |
| 222_L | 245_I | 1.313 | 0.95 |
| 171_S | 175_R | 1.313 | 0.95 |
| 412_V | 415_Y | 1.305 | 0.95 |
| 434_G | 438_G | 1.295 | 0.95 |
| 422_K | 425_E | 1.289 | 0.94 |
| 432_D | 436_Q | 1.282 | 0.94 |
| 303_Y | 321_C | 1.281 | 0.94 |
| 195_Y | 199_S | 1.270 | 0.94 |
| 442_G | 450_E | 1.269 | 0.94 |
| 436_Q | 443_A | 1.261 | 0.94 |
| 420_Q | 428_G | 1.258 | 0.93 |
| 312_C | 323_C | 1.257 | 0.93 |
| 314_T | 324_R | 1.251 | 0.93 |
| 318_V | 324_R | 1.249 | 0.93 |
| 411_E | 416_E | 1.248 | 0.93 |
| 15_P | 19_Q | 1.244 | 0.93 |
| 266_A | 269_F | 1.240 | 0.93 |
| 21_F | 32_H | 1.236 | 0.93 |
| 429_L | 433_I | 1.235 | 0.93 |
| 65_V | 69_F | 1.234 | 0.93 |
| 413_L | 416_E | 1.231 | 0.92 |
| 428_G | 431_G | 1.228 | 0.92 |
| 440_F | 445_I | 1.225 | 0.92 |
| 391_K | 394_K | 1.223 | 0.92 |
| 321_C | 325_M | 1.219 | 0.92 |
| 454_Y | 458_V | 1.213 | 0.92 |
| 361_C | 370_Y | 1.210 | 0.92 |
| 63_E | 67_Y | 1.208 | 0.92 |
| 434_G | 444_S | 1.203 | 0.91 |
| 339_Q | 343_C | 1.198 | 0.91 |
| 316_Y | 319_E | 1.191 | 0.91 |
| 244_G | 262_G | 1.186 | 0.91 |
| 336_T | 339_Q | 1.182 | 0.90 |
| 410_F | 414_N | 1.182 | 0.90 |
| 244_G | 268_G | 1.181 | 0.90 |
| 172_C | 184_F | 1.177 | 0.90 |
| 437_M | 441_I | 1.175 | 0.90 |
| 342_E | 346_P | 1.169 | 0.90 |
| 308_C | 361_C | 1.168 | 0.90 |
| 53_S | 57_L | 1.163 | 0.89 |
| 412_V | 417_T | 1.162 | 0.89 |
| 248_Q | 258_I | 1.158 | 0.89 |
| 440_F | 447_T | 1.153 | 0.89 |
| 34_F | 42_K | 1.148 | 0.89 |
| 164_D | 167_D | 1.145 | 0.88 |
| 315_R | 319_E | 1.141 | 0.88 |
| 308_C | 321_C | 1.138 | 0.88 |
| 45_L | 49_C | 1.137 | 0.88 |
| 368_T | 371_G | 1.129 | 0.87 |
| 25_S | 29_G | 1.127 | 0.87 |
| 250_H | 254_E | 1.126 | 0.87 |
| 254_E | 261_L | 1.125 | 0.87 |
| 439_L | 442_G | 1.125 | 0.87 |
| 283_L | 290_C | 1.124 | 0.87 |
| 90_V | 93_C | 1.124 | 0.87 |
| 165_I | 195_Y | 1.121 | 0.87 |
| 284_P | 287_W | 1.120 | 0.87 |
| 213_G | 216_N | 1.115 | 0.87 |
| 431_G | 435_G | 1.113 | 0.86 |
| 18_I | 22_A | 1.112 | 0.86 |
| 281_I | 419_E | 1.112 | 0.86 |
| 213_G | 218_L | 1.108 | 0.86 |
| 446_L | 453_D | 1.102 | 0.86 |
| 452_F | 456_Y | 1.090 | 0.85 |
| 439_L | 450_E | 1.088 | 0.85 |
| 440_F | 443_A | 1.088 | 0.85 |
| 68_Y | 71_Y | 1.086 | 0.85 |
| 223_D | 267_P | 1.086 | 0.85 |
| 420_Q | 431_G | 1.081 | 0.84 |
| 194_C | 198_N | 1.080 | 0.84 |
| 389_A | 392_F | 1.079 | 0.84 |
| 440_F | 444_S | 1.078 | 0.84 |
| 52_G | 56_V | 1.074 | 0.84 |
| 192_G | 213_G | 1.073 | 0.84 |
| 194_C | 197_F | 1.072 | 0.83 |
| 450_E | 453_D | 1.071 | 0.83 |
| 56_V | 60_V | 1.070 | 0.83 |
| 398_Y | 402_N | 1.070 | 0.83 |
| 359_C | 370_Y | 1.068 | 0.83 |
| 290_C | 303_Y | 1.067 | 0.83 |
| 192_G | 197_F | 1.066 | 0.83 |
| 435_G | 447_T | 1.064 | 0.83 |
| 284_P | 332_A | 1.063 | 0.83 |
| 246_K | 262_G | 1.063 | 0.83 |
| 91_T | 196_T | 1.061 | 0.83 |
| 246_K | 258_I | 1.057 | 0.82 |
| 224_I | 229_Y | 1.057 | 0.82 |
| 443_A | 453_D | 1.056 | 0.82 |
| 28_H | 438_G | 1.055 | 0.82 |
| 417_T | 422_K | 1.052 | 0.82 |
| 283_L | 291_N | 1.050 | 0.82 |
| 309_R | 313_E | 1.049 | 0.82 |
| 364_P | 367_L | 1.049 | 0.82 |
| 94_N | 163_H | 1.047 | 0.81 |
| 27_L | 34_F | 1.047 | 0.81 |
| 432_D | 441_I | 1.047 | 0.81 |
| 416_E | 420_Q | 1.046 | 0.81 |
| 435_G | 450_E | 1.043 | 0.81 |
| 186_V | 193_K | 1.043 | 0.81 |
| 165_I | 183_D | 1.043 | 0.81 |
| 314_T | 317_L | 1.041 | 0.81 |
| 323_C | 335_C | 1.037 | 0.81 |
| 32_H | 42_K | 1.034 | 0.80 |
| 99_R | 167_D | 1.033 | 0.80 |
| 388_L | 391_K | 1.032 | 0.80 |
| 443_A | 447_T | 1.028 | 0.80 |
| 281_I | 366_N | 1.027 | 0.80 |
| 339_Q | 342_E | 1.027 | 0.80 |
| 411_E | 414_N | 1.027 | 0.80 |
| 288_G | 291_N | 1.024 | 0.79 |
| 42_K | 65_V | 1.022 | 0.79 |
| 420_Q | 432_D | 1.022 | 0.79 |
| 31_A | 35_S | 1.022 | 0.79 |
| 414_N | 423_A | 1.020 | 0.79 |
| 75_T | 79_E | 1.020 | 0.79 |
| 432_D | 438_G | 1.018 | 0.79 |
| 431_G | 434_G | 1.017 | 0.79 |
| 431_G | 450_E | 1.017 | 0.79 |
| 16_V | 19_Q | 1.016 | 0.79 |
| 244_G | 247_V | 1.015 | 0.79 |
| 28_H | 42_K | 1.014 | 0.78 |
| 313_E | 317_L | 1.014 | 0.78 |
| 53_S | 60_V | 1.013 | 0.78 |
| 317_L | 325_M | 1.013 | 0.78 |
| 35_S | 42_K | 1.012 | 0.78 |
| 29_G | 46_W | 1.012 | 0.78 |
| 335_C | 343_C | 1.011 | 0.78 |
| 13_V | 17_S | 1.011 | 0.78 |
| 42_K | 45_L | 1.010 | 0.78 |
| 73_H | 91_T | 1.010 | 0.78 |
| 409_F | 418_I | 1.008 | 0.78 |
| 23_S | 35_S | 1.008 | 0.78 |
| 451_L | 454_Y | 1.008 | 0.78 |
| 427_A | 437_M | 1.006 | 0.78 |
| 23_S | 31_A | 1.005 | 0.78 |
| 71_Y | 286_P | 1.005 | 0.78 |
| 448_V | 458_V | 1.005 | 0.78 |
| 255_P | 265_V | 1.003 | 0.77 |
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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 2qtsA | 6 | 0.8023 | 100 | 0.248 | Contact Map |
| 2yufA | 1 | 0.173 | 8.4 | 0.978 | Contact Map |
| 2qjyB | 6 | 0.1198 | 5.9 | 0.979 | Contact Map |
| 2k2bA | 1 | 0.0856 | 5.1 | 0.98 | Contact Map |
| 3bo0B | 1 | 0.1236 | 4.6 | 0.98 | Contact Map |
| 3fymA | 1 | 0.0266 | 4 | 0.981 | Contact Map |
| 1zrtD | 2 | 0.1274 | 4 | 0.981 | Contact Map |
| 2mc7A | 1 | 0.057 | 3.9 | 0.981 | Contact Map |
| 2kluA | 1 | 0.1331 | 3.7 | 0.981 | Contact Map |
| 4xtrG | 1 | 0.0418 | 3.4 | 0.982 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)