| hHsp70 |
| ID: | 1501599816 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 641 (616) | ||
| Sequences: | 5041 (2196.5) | ||
| Seq/Len: | 8.183 | ||
| Nf(neff/√len): | 88.5 |
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: 8.183).
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 |
| 141_N | 168_N | 5.021 | 1.00 |
| 225_D | 312_S | 4.673 | 1.00 |
| 236_R | 308_D | 4.361 | 1.00 |
| 209_I | 320_A | 3.782 | 1.00 |
| 348_K | 352_D | 3.640 | 1.00 |
| 237_L | 297_I | 3.621 | 1.00 |
| 279_Q | 296_S | 3.552 | 1.00 |
| 351_Q | 358_D | 3.335 | 1.00 |
| 439_L | 460_E | 3.118 | 1.00 |
| 221_A | 320_A | 3.065 | 1.00 |
| 400_S | 412_A | 3.039 | 1.00 |
| 200_L | 233_F | 2.983 | 1.00 |
| 196_L | 209_I | 2.966 | 1.00 |
| 242_V | 254_S | 2.914 | 1.00 |
| 241_F | 295_T | 2.882 | 1.00 |
| 31_N | 38_T | 2.880 | 1.00 |
| 198_F | 313_T | 2.858 | 1.00 |
| 244_E | 301_R | 2.799 | 1.00 |
| 196_L | 207_V | 2.768 | 1.00 |
| 141_N | 170_L | 2.767 | 1.00 |
| 364_N | 367_E | 2.652 | 1.00 |
| 347_Q | 361_K | 2.651 | 1.00 |
| 575_Q | 579_S | 2.644 | 1.00 |
| 412_A | 415_K | 2.526 | 1.00 |
| 568_K | 572_D | 2.465 | 1.00 |
| 441_Q | 455_L | 2.433 | 1.00 |
| 349_L | 352_D | 2.360 | 1.00 |
| 301_R | 304_E | 2.355 | 1.00 |
| 340_S | 343_I | 2.346 | 1.00 |
| 310_F | 345_K | 2.343 | 1.00 |
| 315_E | 319_K | 2.309 | 1.00 |
| 530_E | 534_E | 2.278 | 1.00 |
| 241_F | 267_C | 2.250 | 1.00 |
| 244_E | 247_R | 2.245 | 1.00 |
| 307_S | 311_R | 2.224 | 1.00 |
| 209_I | 331_I | 2.197 | 1.00 |
| 128_K | 132_E | 2.189 | 1.00 |
| 69_D | 231_E | 2.147 | 1.00 |
| 550_K | 578_I | 2.139 | 1.00 |
| 402_G | 410_M | 2.138 | 1.00 |
| 163_V | 168_N | 2.125 | 1.00 |
| 306_C | 343_I | 2.091 | 1.00 |
| 512_K | 516_E | 2.091 | 1.00 |
| 302_F | 343_I | 2.086 | 1.00 |
| 549_M | 603_C | 2.085 | 1.00 |
| 233_F | 309_L | 2.083 | 1.00 |
| 517_R | 521_E | 2.070 | 1.00 |
| 93_Q | 104_Q | 2.070 | 1.00 |
| 314_L | 353_F | 2.057 | 1.00 |
| 593_E | 597_K | 2.056 | 1.00 |
| 523_E | 526_K | 2.027 | 1.00 |
| 527_A | 531_V | 2.005 | 1.00 |
| 104_Q | 113_A | 1.984 | 1.00 |
| 443_Y | 455_L | 1.962 | 1.00 |
| 595_K | 598_E | 1.953 | 1.00 |
| 233_F | 302_F | 1.943 | 1.00 |
| 302_F | 340_S | 1.924 | 1.00 |
| 298_T | 301_R | 1.921 | 1.00 |
| 491_T | 498_A | 1.906 | 1.00 |
| 318_E | 322_R | 1.896 | 1.00 |
| 564_E | 568_K | 1.895 | 1.00 |
| 6_A | 170_L | 1.891 | 1.00 |
| 525_Y | 528_E | 1.870 | 1.00 |
| 315_E | 318_E | 1.866 | 1.00 |
| 238_V | 264_R | 1.859 | 1.00 |
| 394_L | 419_T | 1.843 | 1.00 |
| 306_C | 310_F | 1.813 | 1.00 |
| 127_M | 130_I | 1.798 | 1.00 |
| 573_K | 576_E | 1.796 | 1.00 |
| 597_K | 601_Q | 1.772 | 1.00 |
| 321_L | 328_K | 1.765 | 1.00 |
| 608_S | 612_Q | 1.761 | 1.00 |
| 129_E | 133_A | 1.744 | 1.00 |
| 566_D | 609_G | 1.726 | 1.00 |
| 397_A | 480_I | 1.725 | 1.00 |
| 145_T | 373_A | 1.722 | 1.00 |
| 439_L | 458_R | 1.711 | 1.00 |
| 104_Q | 111_T | 1.681 | 1.00 |
| 319_K | 323_D | 1.679 | 1.00 |
| 194_N | 211_T | 1.673 | 1.00 |
| 412_A | 448_A | 1.666 | 1.00 |
| 17_C | 28_I | 1.661 | 1.00 |
| 596_R | 600_E | 1.660 | 1.00 |
| 304_E | 307_S | 1.658 | 1.00 |
| 114_F | 119_I | 1.655 | 1.00 |
| 126_K | 130_I | 1.651 | 1.00 |
| 246_K | 252_D | 1.643 | 1.00 |
| 521_E | 524_K | 1.635 | 1.00 |
| 410_M | 443_Y | 1.634 | 1.00 |
| 441_Q | 458_R | 1.631 | 1.00 |
| 211_T | 220_K | 1.626 | 1.00 |
| 240_H | 301_R | 1.626 | 1.00 |
| 241_F | 263_L | 1.611 | 1.00 |
| 520_Q | 524_K | 1.603 | 1.00 |
| 241_F | 282_L | 1.597 | 1.00 |
| 6_A | 377_A | 1.596 | 1.00 |
| 571_L | 575_Q | 1.588 | 1.00 |
| 62_N | 65_N | 1.587 | 1.00 |
| 64_Q | 257_K | 1.572 | 1.00 |
| 64_Q | 93_Q | 1.568 | 1.00 |
| 572_D | 576_E | 1.568 | 1.00 |
| 266_A | 270_A | 1.565 | 1.00 |
| 542_L | 577_V | 1.561 | 1.00 |
| 303_E | 348_K | 1.540 | 1.00 |
| 19_G | 374_A | 1.537 | 1.00 |
| 576_E | 595_K | 1.534 | 1.00 |
| 200_L | 205_F | 1.524 | 1.00 |
| 4_A | 141_N | 1.523 | 1.00 |
| 318_E | 353_F | 1.514 | 1.00 |
| 7_I | 18_V | 1.512 | 1.00 |
| 241_F | 297_I | 1.510 | 1.00 |
| 79_G | 99_D | 1.504 | 1.00 |
| 348_K | 351_Q | 1.500 | 1.00 |
| 236_R | 306_C | 1.500 | 1.00 |
| 603_C | 607_I | 1.499 | 1.00 |
| 193_R | 333_D | 1.492 | 1.00 |
| 600_E | 604_N | 1.489 | 1.00 |
| 327_D | 330_Q | 1.486 | 1.00 |
| 243_E | 254_S | 1.481 | 0.99 |
| 79_G | 96_N | 1.480 | 0.99 |
| 589_K | 593_E | 1.476 | 0.99 |
| 68_F | 91_P | 1.472 | 0.99 |
| 538_A | 593_E | 1.470 | 0.99 |
| 156_Q | 160_D | 1.470 | 0.99 |
| 49_R | 122_M | 1.461 | 0.99 |
| 67_V | 119_I | 1.459 | 0.99 |
| 236_R | 309_L | 1.458 | 0.99 |
| 342_R | 366_D | 1.458 | 0.99 |
| 174_N | 177_T | 1.454 | 0.99 |
| 43_A | 58_Q | 1.452 | 0.99 |
| 573_K | 577_V | 1.451 | 0.99 |
| 527_A | 530_E | 1.449 | 0.99 |
| 144_I | 162_G | 1.443 | 0.99 |
| 570_V | 603_C | 1.434 | 0.99 |
| 588_E | 591_E | 1.431 | 0.99 |
| 526_K | 530_E | 1.430 | 0.99 |
| 573_K | 598_E | 1.424 | 0.99 |
| 194_N | 326_L | 1.413 | 0.99 |
| 244_E | 293_F | 1.412 | 0.99 |
| 319_K | 322_R | 1.410 | 0.99 |
| 181_I | 184_G | 1.406 | 0.99 |
| 58_Q | 62_N | 1.404 | 0.99 |
| 243_E | 246_K | 1.401 | 0.99 |
| 559_K | 567_K | 1.399 | 0.99 |
| 594_H | 598_E | 1.398 | 0.99 |
| 350_L | 359_L | 1.397 | 0.99 |
| 70_A | 123_V | 1.395 | 0.99 |
| 244_E | 295_T | 1.392 | 0.99 |
| 281_S | 294_Y | 1.392 | 0.99 |
| 35_N | 53_D | 1.391 | 0.99 |
| 70_A | 120_S | 1.384 | 0.99 |
| 235_N | 239_N | 1.383 | 0.99 |
| 321_L | 324_A | 1.373 | 0.99 |
| 516_E | 520_Q | 1.370 | 0.99 |
| 182_A | 185_L | 1.358 | 0.99 |
| 242_V | 263_L | 1.354 | 0.99 |
| 345_K | 348_K | 1.343 | 0.99 |
| 411_T | 428_F | 1.339 | 0.99 |
| 314_L | 318_E | 1.338 | 0.99 |
| 307_S | 345_K | 1.338 | 0.99 |
| 299_R | 303_E | 1.335 | 0.99 |
| 194_N | 332_H | 1.330 | 0.99 |
| 120_S | 158_T | 1.328 | 0.99 |
| 249_H | 291_I | 1.327 | 0.99 |
| 405_T | 411_T | 1.327 | 0.99 |
| 70_A | 119_I | 1.327 | 0.99 |
| 11_L | 158_T | 1.325 | 0.99 |
| 473_Q | 493_K | 1.322 | 0.99 |
| 345_K | 349_L | 1.321 | 0.99 |
| 122_M | 125_T | 1.319 | 0.99 |
| 44_F | 114_F | 1.319 | 0.99 |
| 314_L | 349_L | 1.317 | 0.99 |
| 44_F | 122_M | 1.317 | 0.99 |
| 17_C | 37_T | 1.317 | 0.99 |
| 262_R | 266_A | 1.313 | 0.98 |
| 196_L | 317_V | 1.313 | 0.98 |
| 605_P | 608_S | 1.311 | 0.98 |
| 162_G | 169_V | 1.307 | 0.98 |
| 220_K | 326_L | 1.301 | 0.98 |
| 239_N | 254_S | 1.300 | 0.98 |
| 7_I | 142_A | 1.299 | 0.98 |
| 449_M | 452_D | 1.297 | 0.98 |
| 239_N | 243_E | 1.295 | 0.98 |
| 210_L | 219_V | 1.294 | 0.98 |
| 84_Q | 87_M | 1.293 | 0.98 |
| 72_R | 232_D | 1.289 | 0.98 |
| 70_A | 74_I | 1.285 | 0.98 |
| 318_E | 328_K | 1.284 | 0.98 |
| 563_S | 566_D | 1.273 | 0.98 |
| 223_A | 319_K | 1.264 | 0.98 |
| 604_N | 607_I | 1.259 | 0.98 |
| 223_A | 316_P | 1.256 | 0.98 |
| 546_A | 577_V | 1.251 | 0.98 |
| 62_N | 66_T | 1.250 | 0.98 |
| 209_I | 326_L | 1.246 | 0.98 |
| 546_A | 578_I | 1.246 | 0.98 |
| 317_V | 350_L | 1.239 | 0.98 |
| 578_I | 582_D | 1.239 | 0.98 |
| 411_T | 426_Q | 1.236 | 0.98 |
| 163_V | 512_K | 1.234 | 0.97 |
| 310_F | 349_L | 1.230 | 0.97 |
| 351_Q | 359_L | 1.230 | 0.97 |
| 30_A | 36_R | 1.227 | 0.97 |
| 467_A | 492_D | 1.225 | 0.97 |
| 19_G | 370_A | 1.224 | 0.97 |
| 580_W | 595_K | 1.223 | 0.97 |
| 326_L | 330_Q | 1.219 | 0.97 |
| 418_S | 422_T | 1.217 | 0.97 |
| 160_D | 163_V | 1.216 | 0.97 |
| 301_R | 305_L | 1.216 | 0.97 |
| 520_Q | 523_E | 1.214 | 0.97 |
| 144_I | 169_V | 1.205 | 0.97 |
| 8_G | 12_G | 1.203 | 0.97 |
| 511_S | 514_E | 1.194 | 0.97 |
| 246_K | 254_S | 1.191 | 0.97 |
| 442_V | 478_F | 1.191 | 0.97 |
| 78_F | 84_Q | 1.190 | 0.97 |
| 240_H | 297_I | 1.189 | 0.97 |
| 548_N | 552_A | 1.188 | 0.97 |
| 568_K | 571_L | 1.188 | 0.97 |
| 240_H | 244_E | 1.187 | 0.97 |
| 392_L | 482_A | 1.185 | 0.97 |
| 87_M | 93_Q | 1.185 | 0.97 |
| 541_A | 596_R | 1.183 | 0.97 |
| 591_E | 595_K | 1.175 | 0.96 |
| 569_K | 573_K | 1.173 | 0.96 |
| 546_A | 574_C | 1.171 | 0.96 |
| 268_E | 272_R | 1.168 | 0.96 |
| 320_A | 324_A | 1.167 | 0.96 |
| 97_D | 102_K | 1.166 | 0.96 |
| 31_N | 36_R | 1.163 | 0.96 |
| 612_Q | 616_G | 1.160 | 0.96 |
| 449_M | 536_V | 1.160 | 0.96 |
| 437_G | 462_S | 1.158 | 0.96 |
| 13_T | 203_G | 1.153 | 0.96 |
| 333_D | 360_N | 1.149 | 0.96 |
| 16_S | 127_M | 1.145 | 0.96 |
| 36_R | 367_E | 1.144 | 0.96 |
| 535_R | 539_K | 1.139 | 0.95 |
| 253_I | 287_L | 1.132 | 0.95 |
| 194_N | 220_K | 1.131 | 0.95 |
| 455_L | 458_R | 1.130 | 0.95 |
| 567_K | 571_L | 1.129 | 0.95 |
| 323_D | 416_R | 1.128 | 0.95 |
| 237_L | 240_H | 1.127 | 0.95 |
| 176_P | 206_D | 1.125 | 0.95 |
| 437_G | 460_E | 1.124 | 0.95 |
| 76_R | 80_D | 1.123 | 0.95 |
| 596_R | 599_L | 1.121 | 0.95 |
| 514_E | 517_R | 1.121 | 0.95 |
| 22_Q | 27_E | 1.114 | 0.95 |
| 594_H | 597_K | 1.110 | 0.95 |
| 148_A | 206_D | 1.109 | 0.94 |
| 242_V | 245_F | 1.106 | 0.94 |
| 237_L | 267_C | 1.106 | 0.94 |
| 579_S | 582_D | 1.099 | 0.94 |
| 528_E | 531_V | 1.097 | 0.94 |
| 282_L | 297_I | 1.093 | 0.94 |
| 129_E | 132_E | 1.093 | 0.94 |
| 565_A | 569_K | 1.091 | 0.94 |
| 16_S | 40_S | 1.089 | 0.94 |
| 579_S | 583_A | 1.086 | 0.94 |
| 181_I | 186_D | 1.084 | 0.94 |
| 11_L | 120_S | 1.082 | 0.94 |
| 545_Y | 549_M | 1.081 | 0.93 |
| 20_V | 135_L | 1.080 | 0.93 |
| 242_V | 260_V | 1.080 | 0.93 |
| 553_V | 571_L | 1.079 | 0.93 |
| 270_A | 280_A | 1.076 | 0.93 |
| 425_T | 477_T | 1.072 | 0.93 |
| 235_N | 238_V | 1.071 | 0.93 |
| 262_R | 284_I | 1.068 | 0.93 |
| 19_G | 28_I | 1.068 | 0.93 |
| 233_F | 343_I | 1.066 | 0.93 |
| 70_A | 103_V | 1.061 | 0.93 |
| 270_A | 297_I | 1.058 | 0.92 |
| 554_E | 571_L | 1.057 | 0.92 |
| 114_F | 122_M | 1.056 | 0.92 |
| 233_F | 310_F | 1.054 | 0.92 |
| 425_T | 475_E | 1.053 | 0.92 |
| 170_L | 380_L | 1.053 | 0.92 |
| 314_L | 317_V | 1.053 | 0.92 |
| 376_Q | 379_I | 1.049 | 0.92 |
| 533_R | 537_S | 1.049 | 0.92 |
| 132_E | 138_P | 1.048 | 0.92 |
| 183_Y | 186_D | 1.044 | 0.92 |
| 545_Y | 603_C | 1.044 | 0.92 |
| 95_I | 113_A | 1.043 | 0.92 |
| 118_E | 122_M | 1.035 | 0.91 |
| 223_A | 323_D | 1.032 | 0.91 |
| 605_P | 609_G | 1.031 | 0.91 |
| 100_K | 117_E | 1.029 | 0.91 |
| 465_P | 494_S | 1.026 | 0.91 |
| 542_L | 592_F | 1.024 | 0.91 |
| 11_L | 124_L | 1.022 | 0.91 |
| 603_C | 606_I | 1.020 | 0.91 |
| 144_I | 158_T | 1.017 | 0.90 |
| 9_I | 12_G | 1.015 | 0.90 |
| 18_V | 127_M | 1.014 | 0.90 |
| 121_S | 164_I | 1.012 | 0.90 |
| 182_A | 186_D | 1.011 | 0.90 |
| 184_G | 187_R | 1.010 | 0.90 |
| 443_Y | 450_T | 1.010 | 0.90 |
| 569_K | 572_D | 1.009 | 0.90 |
| 84_Q | 88_K | 1.009 | 0.90 |
| 200_L | 313_T | 1.008 | 0.90 |
| 225_D | 228_L | 1.008 | 0.90 |
| 306_C | 345_K | 1.008 | 0.90 |
| 71_K | 175_E | 1.005 | 0.90 |
| 125_T | 129_E | 1.001 | 0.89 |
| 543_E | 547_F | 1.000 | 0.89 |
| 200_L | 346_V | 1.000 | 0.89 |
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 | |
| 3d2fA | 2 | 0.9532 | 100 | 0.217 | Contact Map |
| 4fl9A | 1 | 0.8409 | 100 | 0.269 | Contact Map |
| 4jneA | 2 | 0.922 | 100 | 0.27 | Contact Map |
| 2v7yA | 1 | 0.78 | 100 | 0.347 | Contact Map |
| 4rtfD | 1 | 0.5382 | 100 | 0.36 | Contact Map |
| 3i33A | 1 | 0.5897 | 100 | 0.511 | Contact Map |
| 4j8fA | 1 | 0.8456 | 100 | 0.532 | Contact Map |
| 4kboA | 1 | 0.5772 | 100 | 0.544 | Contact Map |
| 3qfuA | 1 | 0.5897 | 100 | 0.575 | Contact Map |
| 4gniA | 2 | 0.5819 | 100 | 0.576 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)