| P2X7R -force run |
| ID: | 1439206219 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 595 (595) | ||
| Sequences: | 55 (26.9) | ||
| Seq/Len: | 0.092 | ||
| Nf(neff/√len): | 1.1 |
HHblits Results: (2015_06)
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: 0.092).
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 |
| 37_V | 41_V | 2.030 | 0.40 |
| 120_P | 386_K | 1.925 | 0.36 |
| 219_H | 564_A | 1.869 | 0.33 |
| 406_E | 575_W | 1.792 | 0.30 |
| 19_T | 371_C | 1.726 | 0.27 |
| 300_K | 567_A | 1.537 | 0.20 |
| 337_I | 557_R | 1.528 | 0.20 |
| 45_L | 358_Y | 1.498 | 0.19 |
| 38_F | 176_A | 1.488 | 0.19 |
| 326_G | 474_P | 1.483 | 0.19 |
| 9_D | 49_K | 1.469 | 0.18 |
| 261_N | 346_L | 1.448 | 0.18 |
| 480_G | 509_T | 1.436 | 0.17 |
| 87_I | 128_Q | 1.431 | 0.17 |
| 274_S | 455_Q | 1.427 | 0.17 |
| 92_D | 332_Q | 1.424 | 0.17 |
| 549_A | 558_F | 1.424 | 0.17 |
| 325_G | 583_K | 1.417 | 0.17 |
| 184_S | 420_S | 1.415 | 0.17 |
| 69_A | 351_I | 1.401 | 0.16 |
| 11_F | 325_G | 1.400 | 0.16 |
| 171_E | 342_S | 1.391 | 0.16 |
| 251_I | 542_N | 1.388 | 0.16 |
| 292_N | 352_D | 1.388 | 0.16 |
| 398_L | 403_F | 1.387 | 0.16 |
| 22_Q | 147_I | 1.378 | 0.16 |
| 185_A | 341_L | 1.370 | 0.16 |
| 99_G | 403_F | 1.367 | 0.16 |
| 64_K | 253_G | 1.365 | 0.16 |
| 57_L | 228_I | 1.364 | 0.16 |
| 22_Q | 295_Y | 1.350 | 0.15 |
| 27_G | 171_E | 1.340 | 0.15 |
| 27_G | 342_S | 1.340 | 0.15 |
| 429_V | 591_F | 1.340 | 0.15 |
| 49_K | 147_I | 1.338 | 0.15 |
| 408_H | 564_A | 1.338 | 0.15 |
| 38_F | 248_Q | 1.328 | 0.15 |
| 158_K | 184_S | 1.327 | 0.15 |
| 403_F | 591_F | 1.318 | 0.14 |
| 253_G | 352_D | 1.318 | 0.14 |
| 49_K | 403_F | 1.316 | 0.14 |
| 41_V | 143_Q | 1.315 | 0.14 |
| 201_H | 303_G | 1.314 | 0.14 |
| 92_D | 313_F | 1.309 | 0.14 |
| 15_T | 185_A | 1.308 | 0.14 |
| 37_V | 90_T | 1.306 | 0.14 |
| 58_I | 382_Y | 1.304 | 0.14 |
| 64_K | 352_D | 1.301 | 0.14 |
| 94_T | 344_F | 1.298 | 0.14 |
| 445_S | 562_D | 1.291 | 0.14 |
| 92_D | 181_L | 1.288 | 0.14 |
| 54_K | 347_A | 1.285 | 0.14 |
| 299_Y | 345_G | 1.282 | 0.14 |
| 259_D | 308_T | 1.278 | 0.13 |
| 255_E | 344_F | 1.277 | 0.13 |
| 344_F | 347_A | 1.275 | 0.13 |
| 63_T | 573_C | 1.275 | 0.13 |
| 224_P | 266_S | 1.274 | 0.13 |
| 252_M | 291_Y | 1.274 | 0.13 |
| 148_Q | 276_R | 1.271 | 0.13 |
| 123_P | 518_L | 1.264 | 0.13 |
| 239_G | 310_I | 1.263 | 0.13 |
| 292_N | 326_G | 1.262 | 0.13 |
| 289_P | 294_R | 1.261 | 0.13 |
| 290_G | 294_R | 1.261 | 0.13 |
| 69_A | 402_S | 1.260 | 0.13 |
| 297_K | 496_E | 1.257 | 0.13 |
| 224_P | 508_T | 1.257 | 0.13 |
| 71_V | 399_K | 1.254 | 0.13 |
| 325_G | 380_N | 1.253 | 0.13 |
| 45_L | 347_A | 1.252 | 0.13 |
| 49_K | 209_L | 1.251 | 0.13 |
| 21_I | 237_E | 1.251 | 0.13 |
| 402_S | 508_T | 1.248 | 0.13 |
| 58_I | 176_A | 1.244 | 0.13 |
| 351_I | 402_S | 1.241 | 0.13 |
| 518_L | 553_Y | 1.238 | 0.13 |
| 418_G | 568_I | 1.235 | 0.12 |
| 62_H | 143_Q | 1.229 | 0.12 |
| 100_N | 406_E | 1.229 | 0.12 |
| 247_V | 501_R | 1.223 | 0.12 |
| 547_H | 590_G | 1.219 | 0.12 |
| 578_R | 582_P | 1.215 | 0.12 |
| 326_G | 352_D | 1.213 | 0.12 |
| 251_I | 320_L | 1.212 | 0.12 |
| 388_C | 413_D | 1.210 | 0.12 |
| 319_I | 413_D | 1.209 | 0.12 |
| 49_K | 54_K | 1.208 | 0.12 |
| 34_H | 62_H | 1.206 | 0.12 |
| 27_G | 355_I | 1.203 | 0.12 |
| 313_F | 332_Q | 1.201 | 0.12 |
| 527_L | 578_R | 1.201 | 0.12 |
| 527_L | 582_P | 1.201 | 0.12 |
| 108_Y | 257_Y | 1.197 | 0.12 |
| 133_Q | 539_E | 1.196 | 0.12 |
| 33_L | 429_V | 1.196 | 0.12 |
| 170_A | 313_F | 1.190 | 0.12 |
| 28_T | 201_H | 1.190 | 0.12 |
| 164_I | 191_L | 1.189 | 0.12 |
| 120_P | 435_D | 1.187 | 0.11 |
| 96_P | 408_H | 1.173 | 0.11 |
| 352_D | 533_L | 1.172 | 0.11 |
| 40_Y | 347_A | 1.171 | 0.11 |
| 155_Y | 534_L | 1.169 | 0.11 |
| 18_V | 176_A | 1.169 | 0.11 |
| 211_G | 274_S | 1.168 | 0.11 |
| 302_N | 585_Q | 1.167 | 0.11 |
| 297_K | 350_C | 1.165 | 0.11 |
| 12_Q | 297_K | 1.164 | 0.11 |
| 30_K | 571_S | 1.164 | 0.11 |
| 123_P | 553_Y | 1.161 | 0.11 |
| 238_I | 252_M | 1.161 | 0.11 |
| 178_R | 295_Y | 1.158 | 0.11 |
| 38_F | 291_Y | 1.158 | 0.11 |
| 88_F | 201_H | 1.157 | 0.11 |
| 45_L | 58_I | 1.157 | 0.11 |
| 126_G | 235_F | 1.156 | 0.11 |
| 144_S | 545_L | 1.156 | 0.11 |
| 220_K | 433_Q | 1.155 | 0.11 |
| 203_Y | 534_L | 1.154 | 0.11 |
| 23_S | 289_P | 1.151 | 0.11 |
| 23_S | 290_G | 1.151 | 0.11 |
| 23_S | 294_R | 1.151 | 0.11 |
| 14_E | 291_Y | 1.150 | 0.11 |
| 109_L | 295_Y | 1.148 | 0.11 |
| 265_W | 400_Y | 1.146 | 0.11 |
| 21_I | 209_L | 1.146 | 0.11 |
| 518_L | 529_Y | 1.145 | 0.11 |
| 187_N | 341_L | 1.145 | 0.11 |
| 313_F | 488_P | 1.144 | 0.11 |
| 244_E | 536_L | 1.144 | 0.11 |
| 255_E | 347_A | 1.143 | 0.11 |
| 197_D | 235_F | 1.140 | 0.11 |
| 255_E | 320_L | 1.140 | 0.11 |
| 576_K | 589_S | 1.138 | 0.11 |
| 87_I | 117_K | 1.136 | 0.10 |
| 62_H | 253_G | 1.136 | 0.10 |
| 100_N | 510_S | 1.136 | 0.10 |
| 484_P | 575_W | 1.135 | 0.10 |
| 55_E | 418_G | 1.134 | 0.10 |
| 53_R | 310_I | 1.134 | 0.10 |
| 425_K | 533_L | 1.133 | 0.10 |
| 191_L | 420_S | 1.132 | 0.10 |
| 160_K | 508_T | 1.132 | 0.10 |
| 18_V | 382_Y | 1.127 | 0.10 |
| 209_L | 412_V | 1.126 | 0.10 |
| 519_S | 589_S | 1.125 | 0.10 |
| 276_R | 404_V | 1.125 | 0.10 |
| 151_R | 245_V | 1.125 | 0.10 |
| 403_F | 411_M | 1.124 | 0.10 |
| 166_A | 279_D | 1.123 | 0.10 |
| 176_A | 248_Q | 1.122 | 0.10 |
| 320_L | 574_R | 1.120 | 0.10 |
| 158_K | 297_K | 1.119 | 0.10 |
| 185_A | 533_L | 1.118 | 0.10 |
| 163_E | 229_F | 1.117 | 0.10 |
| 149_T | 152_C | 1.117 | 0.10 |
| 149_T | 314_G | 1.117 | 0.10 |
| 150_G | 314_G | 1.117 | 0.10 |
| 152_C | 314_G | 1.117 | 0.10 |
| 197_D | 286_S | 1.117 | 0.10 |
| 87_I | 410_W | 1.116 | 0.10 |
| 23_S | 195_N | 1.116 | 0.10 |
| 341_L | 409_I | 1.113 | 0.10 |
| 116_Q | 358_Y | 1.112 | 0.10 |
| 97_L | 200_G | 1.108 | 0.10 |
| 13_Y | 289_P | 1.106 | 0.10 |
| 13_Y | 290_G | 1.106 | 0.10 |
| 13_Y | 294_R | 1.106 | 0.10 |
| 71_V | 568_I | 1.104 | 0.10 |
| 406_E | 510_S | 1.103 | 0.10 |
| 230_R | 288_F | 1.103 | 0.10 |
| 485_S | 496_E | 1.103 | 0.10 |
| 199_P | 322_F | 1.102 | 0.10 |
| 133_Q | 569_L | 1.097 | 0.10 |
| 220_K | 251_I | 1.097 | 0.10 |
| 266_S | 480_G | 1.096 | 0.10 |
| 265_W | 534_L | 1.094 | 0.10 |
| 202_N | 559_V | 1.093 | 0.10 |
| 197_D | 255_E | 1.091 | 0.10 |
| 15_T | 341_L | 1.091 | 0.10 |
| 218_F | 351_I | 1.091 | 0.10 |
| 30_K | 557_R | 1.090 | 0.10 |
| 117_K | 228_I | 1.088 | 0.10 |
| 58_I | 347_A | 1.087 | 0.10 |
| 15_T | 187_N | 1.087 | 0.10 |
| 62_H | 347_A | 1.087 | 0.10 |
| 57_L | 469_R | 1.086 | 0.10 |
| 29_I | 55_E | 1.084 | 0.10 |
| 71_V | 100_N | 1.083 | 0.10 |
| 263_D | 275_F | 1.083 | 0.10 |
| 53_R | 413_D | 1.083 | 0.10 |
| 120_P | 519_S | 1.080 | 0.10 |
| 112_E | 255_E | 1.080 | 0.10 |
| 171_E | 355_I | 1.078 | 0.09 |
| 319_I | 347_A | 1.078 | 0.09 |
| 342_S | 355_I | 1.078 | 0.09 |
| 85_H | 319_I | 1.078 | 0.09 |
| 578_R | 588_Y | 1.077 | 0.09 |
| 582_P | 588_Y | 1.077 | 0.09 |
| 31_W | 586_G | 1.077 | 0.09 |
| 223_N | 327_K | 1.076 | 0.09 |
| 170_A | 178_R | 1.075 | 0.09 |
| 473_S | 526_L | 1.074 | 0.09 |
| 170_A | 332_Q | 1.074 | 0.09 |
| 181_L | 357_T | 1.073 | 0.09 |
| 49_K | 395_K | 1.073 | 0.09 |
| 123_P | 529_Y | 1.073 | 0.09 |
| 158_K | 240_E | 1.073 | 0.09 |
| 158_K | 408_H | 1.072 | 0.09 |
| 337_I | 586_G | 1.072 | 0.09 |
| 425_K | 583_K | 1.071 | 0.09 |
| 116_Q | 326_G | 1.071 | 0.09 |
| 143_Q | 147_I | 1.070 | 0.09 |
| 58_I | 253_G | 1.070 | 0.09 |
| 55_E | 68_V | 1.067 | 0.09 |
| 165_F | 236_Q | 1.065 | 0.09 |
| 240_E | 295_Y | 1.065 | 0.09 |
| 92_D | 126_G | 1.065 | 0.09 |
| 403_F | 412_V | 1.065 | 0.09 |
| 527_L | 588_Y | 1.062 | 0.09 |
| 218_F | 531_E | 1.061 | 0.09 |
| 265_W | 324_T | 1.060 | 0.09 |
| 386_K | 519_S | 1.060 | 0.09 |
| 320_L | 344_F | 1.059 | 0.09 |
| 195_N | 289_P | 1.057 | 0.09 |
| 195_N | 290_G | 1.057 | 0.09 |
| 195_N | 294_R | 1.057 | 0.09 |
| 524_Q | 583_K | 1.057 | 0.09 |
| 196_I | 311_K | 1.056 | 0.09 |
| 550_Y | 578_R | 1.055 | 0.09 |
| 550_Y | 582_P | 1.055 | 0.09 |
| 285_E | 398_L | 1.054 | 0.09 |
| 303_G | 418_G | 1.053 | 0.09 |
| 327_K | 468_P | 1.053 | 0.09 |
| 143_Q | 297_K | 1.053 | 0.09 |
| 126_G | 156_D | 1.053 | 0.09 |
| 12_Q | 295_Y | 1.052 | 0.09 |
| 132_D | 144_S | 1.052 | 0.09 |
| 55_E | 257_Y | 1.051 | 0.09 |
| 313_F | 348_T | 1.051 | 0.09 |
| 9_D | 591_F | 1.050 | 0.09 |
| 51_Y | 61_V | 1.048 | 0.09 |
| 549_A | 573_C | 1.048 | 0.09 |
| 558_F | 573_C | 1.048 | 0.09 |
| 201_H | 418_G | 1.048 | 0.09 |
| 261_N | 547_H | 1.048 | 0.09 |
| 48_D | 347_A | 1.048 | 0.09 |
| 176_A | 382_Y | 1.048 | 0.09 |
| 55_E | 325_G | 1.046 | 0.09 |
| 156_D | 197_D | 1.045 | 0.09 |
| 65_V | 298_Y | 1.045 | 0.09 |
| 474_P | 557_R | 1.044 | 0.09 |
| 529_Y | 553_Y | 1.044 | 0.09 |
| 92_D | 357_T | 1.044 | 0.09 |
| 255_E | 426_G | 1.044 | 0.09 |
| 143_Q | 526_L | 1.044 | 0.09 |
| 247_V | 382_Y | 1.044 | 0.09 |
| 163_E | 259_D | 1.043 | 0.09 |
| 229_F | 259_D | 1.043 | 0.09 |
| 261_N | 501_R | 1.043 | 0.09 |
| 32_I | 295_Y | 1.043 | 0.09 |
| 131_S | 297_K | 1.043 | 0.09 |
| 404_V | 559_V | 1.043 | 0.09 |
| 291_Y | 388_C | 1.042 | 0.09 |
| 17_K | 161_T | 1.042 | 0.09 |
| 17_K | 189_T | 1.042 | 0.09 |
| 161_T | 189_T | 1.042 | 0.09 |
| 94_T | 280_D | 1.041 | 0.09 |
| 176_A | 252_M | 1.040 | 0.09 |
| 71_V | 418_G | 1.039 | 0.09 |
| 92_D | 419_K | 1.038 | 0.09 |
| 527_L | 550_Y | 1.038 | 0.09 |
| 439_L | 488_P | 1.036 | 0.09 |
| 411_M | 581_F | 1.036 | 0.09 |
| 17_K | 233_D | 1.035 | 0.09 |
| 161_T | 233_D | 1.035 | 0.09 |
| 189_T | 233_D | 1.035 | 0.09 |
| 557_R | 571_S | 1.035 | 0.09 |
| 297_K | 451_P | 1.034 | 0.09 |
| 9_D | 105_M | 1.034 | 0.09 |
| 143_Q | 310_I | 1.034 | 0.09 |
| 222_W | 564_A | 1.034 | 0.09 |
| 53_R | 319_I | 1.034 | 0.09 |
| 394_P | 417_L | 1.033 | 0.09 |
| 181_L | 235_F | 1.032 | 0.09 |
| 526_L | 589_S | 1.032 | 0.09 |
| 58_I | 310_I | 1.031 | 0.09 |
| 325_G | 399_K | 1.029 | 0.09 |
| 112_E | 426_G | 1.029 | 0.09 |
| 549_A | 590_G | 1.027 | 0.09 |
| 558_F | 590_G | 1.027 | 0.09 |
| 136_I | 531_E | 1.024 | 0.09 |
| 336_Y | 510_S | 1.023 | 0.09 |
| 92_D | 348_T | 1.022 | 0.09 |
| 220_K | 480_G | 1.022 | 0.09 |
| 64_K | 292_N | 1.022 | 0.09 |
| 220_K | 320_L | 1.020 | 0.09 |
| 64_K | 185_A | 1.020 | 0.09 |
| 334_V | 390_P | 1.019 | 0.09 |
| 202_N | 404_V | 1.019 | 0.09 |
| 24_V | 334_V | 1.018 | 0.09 |
| 330_I | 403_F | 1.018 | 0.09 |
| 153_I | 522_A | 1.017 | 0.08 |
| 386_K | 420_S | 1.017 | 0.08 |
| 18_V | 58_I | 1.015 | 0.08 |
| 62_H | 255_E | 1.015 | 0.08 |
| 142_P | 581_F | 1.015 | 0.08 |
| 15_T | 383_Y | 1.014 | 0.08 |
| 45_L | 382_Y | 1.013 | 0.08 |
| 248_Q | 252_M | 1.013 | 0.08 |
| 71_V | 325_G | 1.011 | 0.08 |
| 113_G | 306_K | 1.011 | 0.08 |
| 248_Q | 397_T | 1.011 | 0.08 |
| 214_I | 302_N | 1.011 | 0.08 |
| 105_M | 224_P | 1.010 | 0.08 |
| 30_K | 148_Q | 1.010 | 0.08 |
| 70_E | 147_I | 1.009 | 0.08 |
| 92_D | 412_V | 1.009 | 0.08 |
| 319_I | 581_F | 1.008 | 0.08 |
| 38_F | 252_M | 1.008 | 0.08 |
| 137_K | 577_I | 1.008 | 0.08 |
| 351_I | 386_K | 1.008 | 0.08 |
| 58_I | 62_H | 1.007 | 0.08 |
| 185_A | 412_V | 1.007 | 0.08 |
| 148_Q | 557_R | 1.007 | 0.08 |
| 336_Y | 382_Y | 1.007 | 0.08 |
| 236_Q | 509_T | 1.007 | 0.08 |
| 308_T | 333_L | 1.007 | 0.08 |
| 75_V | 78_G | 1.006 | 0.08 |
| 105_M | 473_S | 1.003 | 0.08 |
| 70_E | 325_G | 1.002 | 0.08 |
| 374_C | 545_L | 1.002 | 0.08 |
| 310_I | 382_Y | 1.001 | 0.08 |
| 219_H | 222_W | 1.000 | 0.08 |
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 | |
| 4dw1A | 1 | 0.5328 | 100 | 0.616 | Contact Map |
| 2rupA | 1 | 0.0975 | 99.9 | 0.936 | Contact Map |
| 1jlpA | 1 | 0.0336 | 32.7 | 0.99 | Contact Map |
| 3nggA | 2 | 0.0588 | 30.2 | 0.991 | Contact Map |
| 2d9tA | 1 | 0.1311 | 19.8 | 0.991 | Contact Map |
| 1as5A | 1 | 0.0353 | 19.7 | 0.991 | Contact Map |
| 1udkA | 1 | 0.0723 | 15.7 | 0.992 | Contact Map |
| 3icaA | 2 | 0.2874 | 14.8 | 0.992 | Contact Map |
| 3ig2A | 4 | 0.2992 | 10.4 | 0.992 | Contact Map |
| 1pp5A | 1 | 0.0353 | 10 | 0.992 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)