| T0817 |
| ID: | 1402597570 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 525 (516) | ||
| Sequences: | 618 (476.1) | ||
| Seq/Len: | 1.198 | ||
| Nf(neff/√len): | 21.0 |
HHblits Results: (2013_03)
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: 1.198).
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 |
| 144_D | 147_H | 4.440 | 1.00 |
| 291_Q | 348_K | 3.804 | 1.00 |
| 466_A | 470_Q | 3.517 | 1.00 |
| 143_V | 149_T | 3.461 | 1.00 |
| 115_C | 148_I | 3.445 | 1.00 |
| 303_A | 307_K | 3.279 | 1.00 |
| 111_D | 114_A | 3.221 | 1.00 |
| 141_E | 149_T | 2.887 | 1.00 |
| 296_V | 394_I | 2.872 | 1.00 |
| 195_I | 205_E | 2.816 | 1.00 |
| 102_V | 189_T | 2.793 | 1.00 |
| 296_V | 389_M | 2.776 | 1.00 |
| 86_K | 97_T | 2.773 | 1.00 |
| 110_F | 189_T | 2.759 | 1.00 |
| 116_K | 142_V | 2.594 | 1.00 |
| 193_V | 208_D | 2.567 | 1.00 |
| 95_H | 147_H | 2.514 | 1.00 |
| 341_A | 344_A | 2.500 | 1.00 |
| 451_T | 485_N | 2.488 | 1.00 |
| 470_Q | 473_P | 2.466 | 0.99 |
| 102_V | 110_F | 2.447 | 0.99 |
| 344_A | 348_K | 2.440 | 0.99 |
| 84_D | 97_T | 2.287 | 0.99 |
| 455_N | 458_P | 2.254 | 0.99 |
| 85_W | 96_L | 2.242 | 0.99 |
| 113_A | 142_V | 2.227 | 0.99 |
| 455_N | 477_K | 2.184 | 0.98 |
| 112_A | 142_V | 2.179 | 0.98 |
| 100_E | 146_Y | 2.149 | 0.98 |
| 292_V | 349_A | 2.146 | 0.98 |
| 291_Q | 294_K | 2.139 | 0.98 |
| 287_L | 366_L | 2.129 | 0.98 |
| 290_P | 294_K | 2.072 | 0.98 |
| 291_Q | 345_L | 2.044 | 0.97 |
| 112_A | 143_V | 2.020 | 0.97 |
| 298_I | 341_A | 2.019 | 0.97 |
| 458_P | 462_A | 2.001 | 0.97 |
| 305_I | 309_L | 2.000 | 0.97 |
| 114_A | 118_N | 2.000 | 0.97 |
| 463_A | 474_T | 1.980 | 0.97 |
| 37_T | 219_R | 1.975 | 0.97 |
| 116_K | 120_E | 1.947 | 0.96 |
| 87_I | 94_L | 1.930 | 0.96 |
| 38_L | 504_V | 1.914 | 0.96 |
| 99_R | 102_V | 1.908 | 0.96 |
| 150_V | 159_L | 1.904 | 0.95 |
| 297_S | 486_D | 1.897 | 0.95 |
| 69_V | 96_L | 1.890 | 0.95 |
| 88_E | 92_K | 1.882 | 0.95 |
| 83_T | 100_E | 1.856 | 0.95 |
| 69_V | 85_W | 1.845 | 0.94 |
| 116_K | 148_I | 1.758 | 0.92 |
| 103_K | 109_K | 1.735 | 0.92 |
| 88_E | 95_H | 1.732 | 0.91 |
| 35_A | 218_E | 1.722 | 0.91 |
| 505_Q | 522_V | 1.691 | 0.90 |
| 173_S | 176_S | 1.691 | 0.90 |
| 81_L | 102_V | 1.690 | 0.90 |
| 36_G | 218_E | 1.688 | 0.90 |
| 428_D | 471_I | 1.685 | 0.90 |
| 283_R | 416_D | 1.679 | 0.90 |
| 345_L | 348_K | 1.648 | 0.89 |
| 340_A | 343_S | 1.633 | 0.88 |
| 284_A | 288_K | 1.633 | 0.88 |
| 72_G | 76_Q | 1.607 | 0.87 |
| 93_T | 151_H | 1.597 | 0.86 |
| 50_D | 121_R | 1.596 | 0.86 |
| 453_P | 485_N | 1.593 | 0.86 |
| 300_I | 389_M | 1.588 | 0.86 |
| 99_R | 211_W | 1.577 | 0.85 |
| 283_R | 286_P | 1.576 | 0.85 |
| 299_G | 392_V | 1.574 | 0.85 |
| 143_V | 147_H | 1.555 | 0.84 |
| 97_T | 147_H | 1.541 | 0.84 |
| 41_A | 240_I | 1.537 | 0.83 |
| 216_T | 522_V | 1.520 | 0.82 |
| 72_G | 78_E | 1.508 | 0.82 |
| 196_S | 201_Q | 1.499 | 0.81 |
| 95_H | 149_T | 1.498 | 0.81 |
| 83_T | 99_R | 1.483 | 0.80 |
| 114_A | 173_S | 1.478 | 0.80 |
| 36_G | 522_V | 1.474 | 0.80 |
| 35_A | 522_V | 1.472 | 0.80 |
| 36_G | 216_T | 1.471 | 0.79 |
| 111_D | 118_N | 1.470 | 0.79 |
| 103_K | 209_G | 1.452 | 0.78 |
| 192_W | 217_Y | 1.450 | 0.78 |
| 193_V | 205_E | 1.445 | 0.78 |
| 114_A | 174_P | 1.428 | 0.77 |
| 341_A | 470_Q | 1.420 | 0.76 |
| 287_L | 296_V | 1.419 | 0.76 |
| 289_D | 349_A | 1.415 | 0.76 |
| 323_A | 493_Y | 1.413 | 0.76 |
| 81_L | 189_T | 1.399 | 0.75 |
| 343_S | 347_E | 1.398 | 0.74 |
| 351_W | 359_K | 1.395 | 0.74 |
| 206_H | 218_E | 1.371 | 0.72 |
| 340_A | 469_D | 1.367 | 0.72 |
| 462_A | 466_A | 1.363 | 0.72 |
| 236_R | 258_Q | 1.357 | 0.71 |
| 235_L | 243_V | 1.355 | 0.71 |
| 114_A | 117_W | 1.343 | 0.70 |
| 97_T | 144_D | 1.338 | 0.70 |
| 66_E | 189_T | 1.335 | 0.70 |
| 390_K | 395_D | 1.327 | 0.69 |
| 35_A | 216_T | 1.324 | 0.69 |
| 341_A | 391_E | 1.324 | 0.69 |
| 142_V | 148_I | 1.322 | 0.68 |
| 279_F | 417_L | 1.308 | 0.67 |
| 346_L | 394_I | 1.303 | 0.67 |
| 120_E | 142_V | 1.299 | 0.66 |
| 225_I | 240_I | 1.296 | 0.66 |
| 292_V | 346_L | 1.290 | 0.66 |
| 186_P | 194_Q | 1.288 | 0.66 |
| 453_P | 481_W | 1.287 | 0.65 |
| 119_L | 150_V | 1.272 | 0.64 |
| 225_I | 234_A | 1.271 | 0.64 |
| 306_S | 316_P | 1.269 | 0.64 |
| 89_D | 348_K | 1.267 | 0.64 |
| 206_H | 388_E | 1.258 | 0.63 |
| 301_D | 304_A | 1.256 | 0.63 |
| 366_L | 417_L | 1.253 | 0.62 |
| 109_K | 146_Y | 1.250 | 0.62 |
| 232_V | 236_R | 1.249 | 0.62 |
| 339_A | 391_E | 1.249 | 0.62 |
| 430_F | 475_I | 1.246 | 0.62 |
| 347_E | 357_R | 1.242 | 0.61 |
| 340_A | 348_K | 1.238 | 0.61 |
| 36_G | 217_Y | 1.237 | 0.61 |
| 142_V | 149_T | 1.229 | 0.60 |
| 94_L | 152_F | 1.229 | 0.60 |
| 385_I | 389_M | 1.225 | 0.60 |
| 110_F | 194_Q | 1.223 | 0.60 |
| 88_E | 93_T | 1.221 | 0.59 |
| 409_D | 414_K | 1.221 | 0.59 |
| 363_P | 395_D | 1.217 | 0.59 |
| 451_T | 456_L | 1.215 | 0.59 |
| 282_D | 450_V | 1.210 | 0.58 |
| 235_L | 240_I | 1.209 | 0.58 |
| 294_K | 345_L | 1.208 | 0.58 |
| 157_L | 471_I | 1.207 | 0.58 |
| 68_L | 82_A | 1.201 | 0.58 |
| 88_E | 91_G | 1.200 | 0.57 |
| 343_S | 357_R | 1.197 | 0.57 |
| 104_F | 175_K | 1.195 | 0.57 |
| 140_L | 148_I | 1.190 | 0.56 |
| 504_V | 523_L | 1.190 | 0.56 |
| 6_R | 9_L | 1.187 | 0.56 |
| 103_K | 470_Q | 1.181 | 0.56 |
| 347_E | 363_P | 1.180 | 0.56 |
| 95_H | 143_V | 1.174 | 0.55 |
| 386_Q | 398_I | 1.171 | 0.55 |
| 459_L | 477_K | 1.170 | 0.55 |
| 473_P | 476_Q | 1.167 | 0.54 |
| 439_S | 457_D | 1.165 | 0.54 |
| 105_Q | 189_T | 1.165 | 0.54 |
| 466_A | 474_T | 1.165 | 0.54 |
| 455_N | 481_W | 1.161 | 0.54 |
| 203_V | 219_R | 1.158 | 0.53 |
| 94_L | 160_M | 1.158 | 0.53 |
| 365_T | 397_V | 1.149 | 0.53 |
| 119_L | 163_L | 1.148 | 0.52 |
| 66_E | 210_Y | 1.147 | 0.52 |
| 463_A | 475_I | 1.147 | 0.52 |
| 9_L | 12_A | 1.147 | 0.52 |
| 321_F | 455_N | 1.146 | 0.52 |
| 81_L | 98_L | 1.140 | 0.52 |
| 353_G | 356_I | 1.140 | 0.52 |
| 472_E | 476_Q | 1.139 | 0.52 |
| 477_K | 480_D | 1.130 | 0.51 |
| 94_L | 159_L | 1.128 | 0.50 |
| 93_T | 149_T | 1.126 | 0.50 |
| 38_L | 220_L | 1.124 | 0.50 |
| 292_V | 350_G | 1.122 | 0.50 |
| 389_M | 392_V | 1.115 | 0.49 |
| 303_A | 316_P | 1.114 | 0.49 |
| 456_L | 482_L | 1.113 | 0.49 |
| 113_A | 145_D | 1.112 | 0.49 |
| 217_Y | 503_R | 1.109 | 0.49 |
| 456_L | 460_I | 1.109 | 0.49 |
| 66_E | 191_P | 1.105 | 0.48 |
| 344_A | 347_E | 1.097 | 0.47 |
| 66_E | 211_W | 1.097 | 0.47 |
| 309_L | 384_V | 1.096 | 0.47 |
| 259_L | 264_F | 1.092 | 0.47 |
| 454_V | 485_N | 1.088 | 0.47 |
| 97_T | 146_Y | 1.086 | 0.46 |
| 140_L | 208_D | 1.085 | 0.46 |
| 115_C | 171_F | 1.085 | 0.46 |
| 8_F | 12_A | 1.084 | 0.46 |
| 85_W | 160_M | 1.082 | 0.46 |
| 505_Q | 524_A | 1.081 | 0.46 |
| 473_P | 477_K | 1.074 | 0.45 |
| 206_H | 215_P | 1.073 | 0.45 |
| 344_A | 469_D | 1.073 | 0.45 |
| 265_N | 502_K | 1.071 | 0.45 |
| 5_R | 17_G | 1.068 | 0.45 |
| 112_A | 148_I | 1.066 | 0.44 |
| 118_N | 171_F | 1.062 | 0.44 |
| 103_K | 343_S | 1.060 | 0.44 |
| 90_G | 95_H | 1.058 | 0.44 |
| 317_A | 493_Y | 1.057 | 0.44 |
| 91_G | 152_F | 1.056 | 0.43 |
| 110_F | 118_N | 1.056 | 0.43 |
| 150_V | 163_L | 1.054 | 0.43 |
| 110_F | 115_C | 1.052 | 0.43 |
| 64_M | 186_P | 1.049 | 0.43 |
| 152_F | 159_L | 1.045 | 0.42 |
| 422_T | 432_S | 1.045 | 0.42 |
| 84_D | 147_H | 1.040 | 0.42 |
| 101_G | 469_D | 1.038 | 0.42 |
| 69_V | 98_L | 1.037 | 0.42 |
| 245_G | 249_A | 1.036 | 0.42 |
| 36_G | 192_W | 1.033 | 0.41 |
| 439_S | 452_D | 1.031 | 0.41 |
| 95_H | 144_D | 1.019 | 0.40 |
| 208_D | 263_G | 1.018 | 0.40 |
| 41_A | 340_A | 1.017 | 0.40 |
| 5_R | 15_A | 1.017 | 0.40 |
| 105_Q | 207_Y | 1.015 | 0.40 |
| 158_A | 429_P | 1.012 | 0.39 |
| 299_G | 389_M | 1.012 | 0.39 |
| 69_V | 163_L | 1.011 | 0.39 |
| 104_F | 121_R | 1.011 | 0.39 |
| 104_F | 281_P | 1.010 | 0.39 |
| 261_A | 365_T | 1.009 | 0.39 |
| 105_Q | 188_G | 1.006 | 0.39 |
| 39_R | 223_K | 1.001 | 0.38 |
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 | |
| 1xocA | 1 | 0.9181 | 100 | 0.252 | Contact Map |
| 2nooA | 1 | 0.9105 | 100 | 0.26 | Contact Map |
| 3t66A | 1 | 0.8914 | 100 | 0.262 | Contact Map |
| 2wolA | 1 | 0.9486 | 100 | 0.265 | Contact Map |
| 3m8uA | 1 | 0.901 | 100 | 0.267 | Contact Map |
| 4fajA | 1 | 0.8876 | 100 | 0.267 | Contact Map |
| 3tpaA | 1 | 0.899 | 100 | 0.269 | Contact Map |
| 1dpeA | 1 | 0.901 | 100 | 0.27 | Contact Map |
| 4gl8A | 2 | 0.8914 | 100 | 0.275 | Contact Map |
| 2grvA | 3 | 0.9067 | 100 | 0.279 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)