| zwilch -force run |
| ID: | 1438088254 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 591 (590) | ||
| Sequences: | 122 (78.4) | ||
| Seq/Len: | 0.207 | ||
| Nf(neff/√len): | 3.2 |
Jackhmmer Results: (2015_01_07)
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: 0.207).
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 |
| 427_K | 431_D | 1.860 | 0.54 |
| 189_H | 537_S | 1.838 | 0.53 |
| 365_D | 405_T | 1.829 | 0.52 |
| 107_R | 483_S | 1.703 | 0.44 |
| 432_Y | 472_E | 1.675 | 0.43 |
| 343_R | 431_D | 1.617 | 0.39 |
| 22_E | 35_E | 1.608 | 0.39 |
| 238_L | 531_W | 1.604 | 0.39 |
| 302_F | 435_F | 1.599 | 0.38 |
| 422_E | 436_F | 1.598 | 0.38 |
| 139_R | 150_W | 1.596 | 0.38 |
| 23_E | 33_L | 1.580 | 0.37 |
| 13_Y | 16_L | 1.560 | 0.36 |
| 6_N | 16_L | 1.552 | 0.36 |
| 144_D | 411_L | 1.552 | 0.36 |
| 272_L | 427_K | 1.540 | 0.35 |
| 241_P | 531_W | 1.537 | 0.35 |
| 6_N | 10_E | 1.528 | 0.34 |
| 206_Y | 231_W | 1.512 | 0.33 |
| 144_D | 413_G | 1.508 | 0.33 |
| 264_H | 386_L | 1.498 | 0.33 |
| 54_I | 64_V | 1.491 | 0.32 |
| 245_S | 456_D | 1.464 | 0.31 |
| 9_A | 25_K | 1.464 | 0.31 |
| 343_R | 427_K | 1.464 | 0.31 |
| 227_L | 557_L | 1.450 | 0.30 |
| 125_K | 589_H | 1.438 | 0.29 |
| 215_D | 386_L | 1.432 | 0.29 |
| 144_D | 148_T | 1.421 | 0.29 |
| 427_K | 432_Y | 1.409 | 0.28 |
| 427_K | 472_E | 1.409 | 0.28 |
| 490_S | 514_V | 1.406 | 0.28 |
| 392_S | 419_M | 1.404 | 0.28 |
| 77_I | 80_L | 1.391 | 0.27 |
| 5_L | 10_E | 1.390 | 0.27 |
| 22_E | 31_P | 1.390 | 0.27 |
| 260_G | 472_E | 1.388 | 0.27 |
| 111_G | 443_S | 1.384 | 0.27 |
| 150_W | 419_M | 1.377 | 0.26 |
| 444_L | 552_S | 1.371 | 0.26 |
| 363_Y | 416_P | 1.370 | 0.26 |
| 348_F | 499_Y | 1.368 | 0.26 |
| 534_E | 548_L | 1.364 | 0.26 |
| 5_L | 20_F | 1.349 | 0.25 |
| 430_K | 551_S | 1.348 | 0.25 |
| 40_V | 71_K | 1.341 | 0.25 |
| 129_P | 375_Q | 1.328 | 0.24 |
| 8_A | 12_F | 1.321 | 0.24 |
| 279_L | 499_Y | 1.321 | 0.24 |
| 217_T | 382_I | 1.319 | 0.24 |
| 537_S | 544_T | 1.317 | 0.24 |
| 348_F | 384_P | 1.312 | 0.24 |
| 231_W | 422_E | 1.312 | 0.24 |
| 144_D | 416_P | 1.310 | 0.23 |
| 2_W | 7_C | 1.305 | 0.23 |
| 269_L | 432_Y | 1.297 | 0.23 |
| 10_E | 20_F | 1.294 | 0.23 |
| 18_Q | 33_L | 1.287 | 0.22 |
| 272_L | 431_D | 1.284 | 0.22 |
| 206_Y | 424_G | 1.281 | 0.22 |
| 255_S | 412_S | 1.280 | 0.22 |
| 148_T | 416_P | 1.276 | 0.22 |
| 2_W | 10_E | 1.273 | 0.22 |
| 140_C | 431_D | 1.270 | 0.22 |
| 420_L | 431_D | 1.268 | 0.22 |
| 302_F | 378_Q | 1.264 | 0.21 |
| 360_V | 395_S | 1.260 | 0.21 |
| 209_F | 252_K | 1.259 | 0.21 |
| 416_P | 471_L | 1.254 | 0.21 |
| 109_L | 183_E | 1.251 | 0.21 |
| 137_W | 382_I | 1.251 | 0.21 |
| 395_S | 500_K | 1.250 | 0.21 |
| 13_Y | 18_Q | 1.249 | 0.21 |
| 3_E | 14_S | 1.248 | 0.21 |
| 272_L | 343_R | 1.247 | 0.21 |
| 39_Q | 46_G | 1.246 | 0.21 |
| 7_C | 22_E | 1.245 | 0.21 |
| 19_K | 33_L | 1.245 | 0.21 |
| 200_S | 541_K | 1.245 | 0.21 |
| 343_R | 363_Y | 1.244 | 0.21 |
| 350_E | 463_R | 1.238 | 0.20 |
| 146_E | 205_Q | 1.236 | 0.20 |
| 352_L | 356_M | 1.232 | 0.20 |
| 123_H | 126_I | 1.231 | 0.20 |
| 126_I | 340_F | 1.231 | 0.20 |
| 135_P | 241_P | 1.230 | 0.20 |
| 299_V | 436_F | 1.230 | 0.20 |
| 16_L | 31_P | 1.228 | 0.20 |
| 135_P | 279_L | 1.227 | 0.20 |
| 215_D | 443_S | 1.227 | 0.20 |
| 349_A | 353_W | 1.225 | 0.20 |
| 25_K | 29_K | 1.225 | 0.20 |
| 2_W | 8_A | 1.225 | 0.20 |
| 14_S | 18_Q | 1.224 | 0.20 |
| 432_Y | 468_H | 1.221 | 0.20 |
| 140_C | 269_L | 1.221 | 0.20 |
| 54_I | 244_S | 1.220 | 0.20 |
| 270_K | 519_V | 1.218 | 0.20 |
| 374_I | 395_S | 1.215 | 0.20 |
| 4_R | 18_Q | 1.214 | 0.20 |
| 21_N | 29_K | 1.214 | 0.20 |
| 325_L | 545_V | 1.213 | 0.19 |
| 106_A | 140_C | 1.213 | 0.19 |
| 350_E | 464_V | 1.213 | 0.19 |
| 451_I | 464_V | 1.212 | 0.19 |
| 20_F | 25_K | 1.212 | 0.19 |
| 360_V | 390_S | 1.208 | 0.19 |
| 260_G | 432_Y | 1.207 | 0.19 |
| 392_S | 397_L | 1.205 | 0.19 |
| 32_F | 37_D | 1.204 | 0.19 |
| 138_V | 339_L | 1.202 | 0.19 |
| 256_G | 472_E | 1.201 | 0.19 |
| 395_S | 399_H | 1.200 | 0.19 |
| 222_Q | 555_D | 1.200 | 0.19 |
| 10_E | 13_Y | 1.198 | 0.19 |
| 206_Y | 321_E | 1.194 | 0.19 |
| 256_G | 510_F | 1.193 | 0.19 |
| 61_V | 230_S | 1.192 | 0.19 |
| 269_L | 464_V | 1.191 | 0.19 |
| 71_K | 81_Q | 1.191 | 0.19 |
| 10_E | 19_K | 1.189 | 0.19 |
| 423_I | 575_E | 1.188 | 0.19 |
| 26_G | 29_K | 1.186 | 0.18 |
| 148_T | 411_L | 1.185 | 0.18 |
| 343_R | 347_D | 1.184 | 0.18 |
| 136_L | 355_K | 1.181 | 0.18 |
| 272_L | 363_Y | 1.179 | 0.18 |
| 140_C | 427_K | 1.179 | 0.18 |
| 7_C | 10_E | 1.177 | 0.18 |
| 350_E | 387_H | 1.176 | 0.18 |
| 209_F | 445_N | 1.176 | 0.18 |
| 144_D | 352_L | 1.175 | 0.18 |
| 39_Q | 48_P | 1.173 | 0.18 |
| 9_A | 12_F | 1.171 | 0.18 |
| 225_I | 496_I | 1.171 | 0.18 |
| 6_N | 15_R | 1.170 | 0.18 |
| 307_N | 312_F | 1.169 | 0.18 |
| 231_W | 531_W | 1.168 | 0.18 |
| 18_Q | 22_E | 1.167 | 0.18 |
| 421_L | 425_L | 1.165 | 0.18 |
| 39_Q | 49_N | 1.163 | 0.18 |
| 91_S | 95_N | 1.162 | 0.18 |
| 101_L | 315_S | 1.162 | 0.18 |
| 348_F | 510_F | 1.161 | 0.18 |
| 13_Y | 17_L | 1.159 | 0.17 |
| 94_E | 106_A | 1.158 | 0.17 |
| 256_G | 432_Y | 1.157 | 0.17 |
| 356_M | 390_S | 1.156 | 0.17 |
| 411_L | 416_P | 1.154 | 0.17 |
| 138_V | 449_Y | 1.154 | 0.17 |
| 343_R | 472_E | 1.152 | 0.17 |
| 357_S | 552_S | 1.151 | 0.17 |
| 350_E | 512_L | 1.150 | 0.17 |
| 423_I | 436_F | 1.149 | 0.17 |
| 302_F | 316_T | 1.149 | 0.17 |
| 339_L | 474_L | 1.149 | 0.17 |
| 427_K | 468_H | 1.147 | 0.17 |
| 220_A | 324_T | 1.147 | 0.17 |
| 23_E | 55_L | 1.144 | 0.17 |
| 45_K | 54_I | 1.144 | 0.17 |
| 466_K | 510_F | 1.142 | 0.17 |
| 347_D | 441_L | 1.141 | 0.17 |
| 42_L | 63_I | 1.140 | 0.17 |
| 394_L | 423_I | 1.140 | 0.17 |
| 214_L | 227_L | 1.138 | 0.17 |
| 12_F | 17_L | 1.138 | 0.17 |
| 19_K | 23_E | 1.137 | 0.17 |
| 8_A | 13_Y | 1.136 | 0.17 |
| 222_Q | 559_F | 1.133 | 0.17 |
| 365_D | 480_F | 1.132 | 0.17 |
| 363_Y | 431_D | 1.130 | 0.16 |
| 378_Q | 514_V | 1.128 | 0.16 |
| 170_V | 310_D | 1.127 | 0.16 |
| 260_G | 427_K | 1.123 | 0.16 |
| 547_Q | 553_P | 1.122 | 0.16 |
| 12_F | 75_S | 1.122 | 0.16 |
| 249_L | 343_R | 1.120 | 0.16 |
| 6_N | 19_K | 1.120 | 0.16 |
| 21_N | 25_K | 1.120 | 0.16 |
| 370_F | 389_G | 1.120 | 0.16 |
| 4_R | 14_S | 1.119 | 0.16 |
| 569_L | 581_N | 1.118 | 0.16 |
| 210_K | 484_Q | 1.118 | 0.16 |
| 370_F | 532_R | 1.116 | 0.16 |
| 7_C | 19_K | 1.116 | 0.16 |
| 140_C | 416_P | 1.114 | 0.16 |
| 38_V | 54_I | 1.114 | 0.16 |
| 6_N | 13_Y | 1.113 | 0.16 |
| 125_K | 368_K | 1.112 | 0.16 |
| 233_P | 302_F | 1.112 | 0.16 |
| 431_D | 472_E | 1.111 | 0.16 |
| 59_D | 65_E | 1.111 | 0.16 |
| 7_C | 15_R | 1.111 | 0.16 |
| 54_I | 577_I | 1.110 | 0.16 |
| 13_Y | 31_P | 1.110 | 0.16 |
| 22_E | 519_V | 1.109 | 0.16 |
| 431_D | 468_H | 1.107 | 0.16 |
| 198_V | 206_Y | 1.107 | 0.16 |
| 563_D | 573_L | 1.106 | 0.16 |
| 8_A | 11_D | 1.106 | 0.16 |
| 18_Q | 48_P | 1.106 | 0.16 |
| 122_T | 567_L | 1.104 | 0.16 |
| 143_S | 392_S | 1.104 | 0.16 |
| 72_E | 105_K | 1.103 | 0.16 |
| 231_W | 424_G | 1.101 | 0.16 |
| 324_T | 381_D | 1.099 | 0.15 |
| 103_V | 110_I | 1.099 | 0.15 |
| 441_L | 495_C | 1.098 | 0.15 |
| 13_Y | 19_K | 1.097 | 0.15 |
| 103_V | 225_I | 1.094 | 0.15 |
| 482_K | 584_T | 1.093 | 0.15 |
| 541_K | 545_V | 1.092 | 0.15 |
| 6_N | 12_F | 1.091 | 0.15 |
| 16_L | 25_K | 1.089 | 0.15 |
| 216_D | 464_V | 1.088 | 0.15 |
| 2_W | 13_Y | 1.086 | 0.15 |
| 159_N | 375_Q | 1.083 | 0.15 |
| 46_G | 303_L | 1.083 | 0.15 |
| 243_L | 285_E | 1.081 | 0.15 |
| 195_L | 357_S | 1.077 | 0.15 |
| 2_W | 6_N | 1.075 | 0.15 |
| 211_S | 339_L | 1.074 | 0.15 |
| 362_S | 506_E | 1.071 | 0.15 |
| 239_Q | 283_V | 1.071 | 0.15 |
| 268_E | 467_L | 1.071 | 0.15 |
| 578_F | 581_N | 1.071 | 0.15 |
| 272_L | 468_H | 1.071 | 0.15 |
| 431_D | 464_V | 1.068 | 0.15 |
| 404_G | 436_F | 1.068 | 0.15 |
| 364_Q | 477_C | 1.065 | 0.14 |
| 5_L | 14_S | 1.065 | 0.14 |
| 15_R | 28_R | 1.065 | 0.14 |
| 212_S | 365_D | 1.064 | 0.14 |
| 19_K | 24_K | 1.059 | 0.14 |
| 503_P | 524_Q | 1.058 | 0.14 |
| 291_E | 438_G | 1.058 | 0.14 |
| 32_F | 39_Q | 1.056 | 0.14 |
| 107_R | 365_D | 1.055 | 0.14 |
| 4_R | 10_E | 1.055 | 0.14 |
| 144_D | 421_L | 1.054 | 0.14 |
| 355_K | 390_S | 1.054 | 0.14 |
| 4_R | 7_C | 1.053 | 0.14 |
| 51_L | 78_E | 1.052 | 0.14 |
| 127_N | 158_T | 1.051 | 0.14 |
| 41_Q | 48_P | 1.051 | 0.14 |
| 22_E | 25_K | 1.051 | 0.14 |
| 210_K | 479_P | 1.050 | 0.14 |
| 138_V | 192_R | 1.049 | 0.14 |
| 413_G | 432_Y | 1.049 | 0.14 |
| 324_T | 361_I | 1.048 | 0.14 |
| 428_L | 569_L | 1.048 | 0.14 |
| 11_D | 20_F | 1.047 | 0.14 |
| 24_K | 31_P | 1.047 | 0.14 |
| 54_I | 59_D | 1.046 | 0.14 |
| 122_T | 125_K | 1.045 | 0.14 |
| 6_N | 18_Q | 1.044 | 0.14 |
| 368_K | 520_K | 1.044 | 0.14 |
| 60_I | 63_I | 1.043 | 0.14 |
| 70_E | 85_T | 1.042 | 0.14 |
| 107_R | 433_I | 1.041 | 0.14 |
| 22_E | 29_K | 1.041 | 0.14 |
| 187_N | 223_T | 1.040 | 0.14 |
| 10_E | 16_L | 1.040 | 0.14 |
| 6_N | 32_F | 1.040 | 0.14 |
| 10_E | 18_Q | 1.039 | 0.14 |
| 19_K | 22_E | 1.038 | 0.14 |
| 20_F | 23_E | 1.037 | 0.14 |
| 5_L | 11_D | 1.037 | 0.14 |
| 144_D | 425_L | 1.037 | 0.14 |
| 138_V | 494_I | 1.037 | 0.14 |
| 235_D | 514_V | 1.037 | 0.14 |
| 100_A | 435_F | 1.034 | 0.14 |
| 451_I | 535_I | 1.034 | 0.14 |
| 170_V | 402_Y | 1.034 | 0.14 |
| 77_I | 83_E | 1.033 | 0.13 |
| 241_P | 380_G | 1.032 | 0.13 |
| 49_N | 54_I | 1.030 | 0.13 |
| 180_V | 301_E | 1.030 | 0.13 |
| 74_T | 87_I | 1.028 | 0.13 |
| 4_R | 13_Y | 1.028 | 0.13 |
| 144_D | 269_L | 1.027 | 0.13 |
| 420_L | 427_K | 1.027 | 0.13 |
| 7_C | 11_D | 1.027 | 0.13 |
| 102_P | 232_S | 1.026 | 0.13 |
| 74_T | 211_S | 1.026 | 0.13 |
| 395_S | 437_I | 1.026 | 0.13 |
| 327_H | 370_F | 1.026 | 0.13 |
| 33_L | 93_G | 1.025 | 0.13 |
| 559_F | 563_D | 1.025 | 0.13 |
| 241_P | 279_L | 1.023 | 0.13 |
| 241_P | 499_Y | 1.023 | 0.13 |
| 450_F | 513_P | 1.023 | 0.13 |
| 299_V | 429_K | 1.022 | 0.13 |
| 141_D | 362_S | 1.021 | 0.13 |
| 147_G | 507_Q | 1.020 | 0.13 |
| 26_G | 30_D | 1.019 | 0.13 |
| 2_W | 11_D | 1.019 | 0.13 |
| 307_N | 330_A | 1.019 | 0.13 |
| 6_N | 20_F | 1.019 | 0.13 |
| 572_S | 579_F | 1.019 | 0.13 |
| 137_W | 164_G | 1.019 | 0.13 |
| 236_E | 443_S | 1.019 | 0.13 |
| 483_S | 565_S | 1.019 | 0.13 |
| 138_V | 213_A | 1.018 | 0.13 |
| 253_V | 270_K | 1.018 | 0.13 |
| 189_H | 363_Y | 1.017 | 0.13 |
| 256_G | 427_K | 1.016 | 0.13 |
| 41_Q | 49_N | 1.016 | 0.13 |
| 387_H | 463_R | 1.016 | 0.13 |
| 22_E | 36_A | 1.016 | 0.13 |
| 118_N | 506_E | 1.015 | 0.13 |
| 178_Y | 195_L | 1.013 | 0.13 |
| 232_S | 339_L | 1.013 | 0.13 |
| 40_V | 370_F | 1.010 | 0.13 |
| 70_E | 579_F | 1.010 | 0.13 |
| 312_F | 322_V | 1.010 | 0.13 |
| 45_K | 55_L | 1.009 | 0.13 |
| 7_C | 21_N | 1.008 | 0.13 |
| 366_L | 436_F | 1.008 | 0.13 |
| 386_L | 525_S | 1.007 | 0.13 |
| 115_M | 557_L | 1.005 | 0.13 |
| 8_A | 25_K | 1.005 | 0.13 |
| 133_L | 136_L | 1.003 | 0.13 |
| 416_P | 421_L | 1.003 | 0.13 |
| 110_I | 496_I | 1.003 | 0.13 |
| 583_V | 586_S | 1.002 | 0.13 |
| 139_R | 419_M | 1.001 | 0.13 |
| 353_W | 481_I | 1.000 | 0.13 |
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 | |
| 3if8A | 1 | 0.4399 | 100 | 0.482 | Contact Map |
| 3if8B | 1 | 0.401 | 100 | 0.56 | Contact Map |
| 3aqeA | 6 | 0.1286 | 14.1 | 0.985 | Contact Map |
| 1nkdA | 1 | 0.0355 | 11.1 | 0.986 | Contact Map |
| 1debA | 2 | 0.0863 | 6.5 | 0.987 | Contact Map |
| 3ljmA | 3 | 0.0491 | 5.5 | 0.988 | Contact Map |
| 4p4hI | 8 | 0.1641 | 4.9 | 0.988 | Contact Map |
| 1y5oA | 1 | 0.1557 | 4.7 | 0.988 | Contact Map |
| 1so2A | 4 | 0.132 | 4.5 | 0.988 | Contact Map |
| 3tweA | 2 | 0.0372 | 4.5 | 0.988 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)