| G5E811_MOUSE |
| ID: | 1408924071 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 480 (428) | ||
| Sequences: | 2008 (1300.1) | ||
| Seq/Len: | 4.692 | ||
| Nf(neff/√len): | 62.8 |
Jackhmmer Results: (2014_04_16)
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: 4.692).
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 |
| 101_A | 104_T | 3.737 | 1.00 |
| 65_K | 129_D | 3.138 | 1.00 |
| 147_L | 217_F | 2.856 | 1.00 |
| 67_M | 70_T | 2.615 | 1.00 |
| 150_A | 206_E | 2.379 | 1.00 |
| 118_N | 174_N | 2.203 | 1.00 |
| 307_T | 310_L | 2.188 | 1.00 |
| 118_N | 172_N | 1.959 | 1.00 |
| 212_M | 255_K | 1.937 | 1.00 |
| 126_E | 171_K | 1.928 | 1.00 |
| 303_A | 307_T | 1.841 | 1.00 |
| 415_V | 418_G | 1.794 | 1.00 |
| 250_H | 253_T | 1.756 | 1.00 |
| 417_K | 420_N | 1.712 | 0.99 |
| 200_T | 262_R | 1.710 | 0.99 |
| 216_I | 257_T | 1.677 | 0.99 |
| 198_V | 264_H | 1.668 | 0.99 |
| 169_I | 175_V | 1.665 | 0.99 |
| 146_D | 207_S | 1.622 | 0.99 |
| 119_D | 122_L | 1.617 | 0.99 |
| 125_S | 128_P | 1.596 | 0.99 |
| 58_S | 61_D | 1.575 | 0.99 |
| 185_L | 203_M | 1.564 | 0.99 |
| 292_W | 449_R | 1.560 | 0.99 |
| 100_I | 189_M | 1.550 | 0.99 |
| 200_T | 264_H | 1.541 | 0.99 |
| 355_F | 359_Q | 1.523 | 0.98 |
| 58_S | 130_D | 1.516 | 0.98 |
| 92_I | 111_I | 1.493 | 0.98 |
| 142_I | 167_L | 1.491 | 0.98 |
| 204_Q | 260_E | 1.490 | 0.98 |
| 247_C | 258_C | 1.484 | 0.98 |
| 105_M | 112_F | 1.470 | 0.98 |
| 115_Q | 122_L | 1.459 | 0.98 |
| 460_N | 464_W | 1.444 | 0.98 |
| 366_F | 369_K | 1.435 | 0.98 |
| 289_V | 351_A | 1.433 | 0.98 |
| 237_L | 268_Q | 1.427 | 0.97 |
| 387_D | 390_D | 1.422 | 0.97 |
| 89_T | 218_E | 1.400 | 0.97 |
| 414_V | 417_K | 1.396 | 0.97 |
| 308_T | 312_M | 1.395 | 0.97 |
| 100_I | 107_Y | 1.392 | 0.97 |
| 290_S | 307_T | 1.391 | 0.97 |
| 290_S | 305_G | 1.375 | 0.97 |
| 305_G | 312_M | 1.374 | 0.97 |
| 62_F | 66_L | 1.368 | 0.96 |
| 306_I | 310_L | 1.366 | 0.96 |
| 309_V | 312_M | 1.362 | 0.96 |
| 338_V | 459_F | 1.353 | 0.96 |
| 187_C | 201_C | 1.329 | 0.96 |
| 436_V | 446_T | 1.329 | 0.96 |
| 87_N | 216_I | 1.320 | 0.95 |
| 42_V | 45_K | 1.309 | 0.95 |
| 339_C | 456_F | 1.307 | 0.95 |
| 246_Y | 258_C | 1.303 | 0.95 |
| 386_S | 389_D | 1.298 | 0.95 |
| 419_P | 422_A | 1.294 | 0.95 |
| 212_M | 257_T | 1.292 | 0.95 |
| 86_V | 214_D | 1.292 | 0.95 |
| 142_I | 165_K | 1.278 | 0.94 |
| 312_M | 343_V | 1.277 | 0.94 |
| 411_K | 415_V | 1.269 | 0.94 |
| 293_I | 296_D | 1.264 | 0.94 |
| 207_S | 210_Y | 1.262 | 0.94 |
| 335_W | 340_L | 1.252 | 0.93 |
| 418_G | 421_H | 1.252 | 0.93 |
| 330_K | 350_Y | 1.250 | 0.93 |
| 344_F | 349_E | 1.248 | 0.93 |
| 101_A | 108_R | 1.245 | 0.93 |
| 284_V | 290_S | 1.244 | 0.93 |
| 116_K | 174_N | 1.240 | 0.93 |
| 152_E | 157_F | 1.237 | 0.93 |
| 413_G | 417_K | 1.237 | 0.93 |
| 313_T | 320_R | 1.218 | 0.92 |
| 44_T | 48_N | 1.215 | 0.92 |
| 78_R | 256_F | 1.214 | 0.92 |
| 136_P | 168_R | 1.211 | 0.92 |
| 84_P | 120_P | 1.208 | 0.92 |
| 61_D | 65_K | 1.203 | 0.91 |
| 219_W | 243_D | 1.198 | 0.91 |
| 284_V | 301_R | 1.196 | 0.91 |
| 104_T | 108_R | 1.193 | 0.91 |
| 158_H | 164_N | 1.185 | 0.91 |
| 315_Q | 335_W | 1.184 | 0.91 |
| 193_N | 263_F | 1.184 | 0.91 |
| 161_T | 164_N | 1.183 | 0.91 |
| 292_W | 304_L | 1.182 | 0.91 |
| 149_F | 205_L | 1.182 | 0.91 |
| 424_Q | 428_K | 1.181 | 0.90 |
| 393_R | 397_F | 1.176 | 0.90 |
| 146_D | 307_T | 1.173 | 0.90 |
| 42_V | 46_E | 1.170 | 0.90 |
| 411_K | 421_H | 1.169 | 0.90 |
| 66_L | 122_L | 1.168 | 0.90 |
| 320_R | 323_L | 1.168 | 0.90 |
| 114_R | 178_S | 1.160 | 0.89 |
| 283_I | 329_V | 1.160 | 0.89 |
| 298_A | 314_T | 1.157 | 0.89 |
| 306_I | 327_S | 1.156 | 0.89 |
| 277_Y | 463_Y | 1.155 | 0.89 |
| 115_Q | 147_L | 1.152 | 0.89 |
| 402_Y | 406_P | 1.150 | 0.89 |
| 388_T | 391_E | 1.147 | 0.89 |
| 422_A | 426_M | 1.142 | 0.88 |
| 391_E | 398_S | 1.138 | 0.88 |
| 273_L | 278_I | 1.137 | 0.88 |
| 227_V | 238_L | 1.131 | 0.88 |
| 211_T | 214_D | 1.127 | 0.88 |
| 204_Q | 258_C | 1.125 | 0.87 |
| 414_V | 418_G | 1.125 | 0.87 |
| 404_M | 408_L | 1.125 | 0.87 |
| 73_Y | 119_D | 1.124 | 0.87 |
| 391_E | 396_R | 1.123 | 0.87 |
| 394_E | 398_S | 1.121 | 0.87 |
| 290_S | 347_L | 1.118 | 0.87 |
| 284_V | 339_C | 1.116 | 0.87 |
| 87_N | 218_E | 1.115 | 0.87 |
| 109_V | 185_L | 1.111 | 0.87 |
| 413_G | 419_P | 1.109 | 0.86 |
| 107_Y | 263_F | 1.108 | 0.86 |
| 250_H | 255_K | 1.108 | 0.86 |
| 410_A | 416_P | 1.108 | 0.86 |
| 287_S | 343_V | 1.106 | 0.86 |
| 233_L | 236_F | 1.105 | 0.86 |
| 70_T | 137_S | 1.105 | 0.86 |
| 380_E | 383_Y | 1.099 | 0.86 |
| 305_G | 346_A | 1.096 | 0.85 |
| 323_L | 347_L | 1.088 | 0.85 |
| 388_T | 394_E | 1.087 | 0.85 |
| 308_T | 340_L | 1.085 | 0.85 |
| 155_A | 338_V | 1.081 | 0.84 |
| 60_S | 64_D | 1.080 | 0.84 |
| 300_A | 303_A | 1.080 | 0.84 |
| 328_Y | 333_D | 1.078 | 0.84 |
| 106_D | 153_K | 1.078 | 0.84 |
| 399_F | 402_Y | 1.075 | 0.84 |
| 189_M | 343_V | 1.074 | 0.84 |
| 411_K | 414_V | 1.070 | 0.84 |
| 326_V | 331_A | 1.069 | 0.84 |
| 390_D | 394_E | 1.068 | 0.83 |
| 411_K | 418_G | 1.066 | 0.83 |
| 94_I | 109_V | 1.065 | 0.83 |
| 187_C | 197_D | 1.064 | 0.83 |
| 45_K | 49_S | 1.063 | 0.83 |
| 252_N | 255_K | 1.062 | 0.83 |
| 330_K | 333_D | 1.060 | 0.83 |
| 424_Q | 427_P | 1.059 | 0.83 |
| 269_M | 273_L | 1.058 | 0.83 |
| 288_W | 328_Y | 1.057 | 0.83 |
| 270_G | 326_V | 1.052 | 0.82 |
| 385_F | 393_R | 1.050 | 0.82 |
| 42_V | 47_T | 1.050 | 0.82 |
| 91_N | 220_Q | 1.049 | 0.82 |
| 180_R | 449_R | 1.049 | 0.82 |
| 377_F | 385_F | 1.049 | 0.82 |
| 378_A | 383_Y | 1.048 | 0.82 |
| 294_N | 354_N | 1.047 | 0.82 |
| 343_V | 449_R | 1.046 | 0.82 |
| 250_H | 258_C | 1.045 | 0.82 |
| 43_A | 47_T | 1.043 | 0.81 |
| 372_N | 376_A | 1.043 | 0.81 |
| 397_F | 407_C | 1.041 | 0.81 |
| 301_R | 344_F | 1.040 | 0.81 |
| 123_A | 172_N | 1.039 | 0.81 |
| 239_K | 266_E | 1.039 | 0.81 |
| 96_S | 105_M | 1.036 | 0.81 |
| 237_L | 266_E | 1.035 | 0.81 |
| 234_P | 282_L | 1.033 | 0.81 |
| 276_M | 343_V | 1.033 | 0.81 |
| 274_I | 290_S | 1.031 | 0.80 |
| 48_N | 51_R | 1.031 | 0.80 |
| 267_R | 279_P | 1.030 | 0.80 |
| 73_Y | 122_L | 1.029 | 0.80 |
| 48_N | 53_R | 1.028 | 0.80 |
| 47_T | 51_R | 1.028 | 0.80 |
| 137_S | 169_I | 1.026 | 0.80 |
| 383_Y | 388_T | 1.025 | 0.80 |
| 307_T | 311_T | 1.024 | 0.80 |
| 245_R | 257_T | 1.024 | 0.80 |
| 300_A | 354_N | 1.024 | 0.80 |
| 291_F | 452_F | 1.024 | 0.80 |
| 287_S | 304_L | 1.023 | 0.80 |
| 379_L | 383_Y | 1.023 | 0.80 |
| 232_T | 237_L | 1.023 | 0.80 |
| 100_I | 278_I | 1.022 | 0.80 |
| 412_D | 415_V | 1.022 | 0.80 |
| 119_D | 142_I | 1.022 | 0.80 |
| 85_P | 214_D | 1.018 | 0.79 |
| 449_R | 453_P | 1.015 | 0.79 |
| 390_D | 396_R | 1.013 | 0.79 |
| 185_L | 335_W | 1.012 | 0.79 |
| 441_A | 446_T | 1.010 | 0.78 |
| 142_I | 175_V | 1.010 | 0.78 |
| 169_I | 173_G | 1.009 | 0.78 |
| 280_S | 339_C | 1.009 | 0.78 |
| 98_G | 105_M | 1.008 | 0.78 |
| 293_I | 340_L | 1.008 | 0.78 |
| 272_Y | 305_G | 1.006 | 0.78 |
| 275_Q | 313_T | 1.005 | 0.78 |
| 420_N | 424_Q | 1.004 | 0.78 |
| 380_E | 384_R | 1.003 | 0.78 |
| 97_F | 347_L | 1.002 | 0.78 |
| 354_N | 358_R | 1.002 | 0.78 |
| 378_A | 392_V | 1.001 | 0.78 |
| 418_G | 422_A | 1.000 | 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
- 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 | |
| 4aq5A | 2 | 0.7625 | 100 | 0.284 | Contact Map |
| 4aq5B | 1 | 0.7604 | 100 | 0.288 | Contact Map |
| 4aq5E | 1 | 0.7625 | 100 | 0.29 | Contact Map |
| 4aq5C | 1 | 0.7458 | 100 | 0.292 | Contact Map |
| 2bg9E | 1 | 0.7604 | 100 | 0.298 | Contact Map |
| 3rhwA | 5 | 0.6979 | 100 | 0.301 | Contact Map |
| 2bg9A | 2 | 0.7625 | 100 | 0.301 | Contact Map |
| 2bg9B | 1 | 0.7667 | 100 | 0.303 | Contact Map |
| 2bg9C | 1 | 0.7542 | 100 | 0.303 | Contact Map |
| 4cofA | 5 | 0.7083 | 100 | 0.305 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)