| ACM1 |
| ID: | 1492194994 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 460 (434) | ||
| Sequences: | 2568 (2174.9) | ||
| Seq/Len: | 5.917 | ||
| Nf(neff/√len): | 104.4 |
Jackhmmer Results: (2016_04)
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: 5.917).
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 |
| 391_C | 394_C | 4.211 | 1.00 |
| 39_T | 75_G | 2.515 | 1.00 |
| 98_C | 178_C | 2.071 | 1.00 |
| 66_S | 115_N | 2.029 | 1.00 |
| 302_I | 305_P | 1.966 | 1.00 |
| 91_W | 94_G | 1.922 | 1.00 |
| 66_S | 150_W | 1.812 | 1.00 |
| 254_T | 257_G | 1.696 | 1.00 |
| 56_L | 61_N | 1.676 | 1.00 |
| 295_E | 298_S | 1.653 | 1.00 |
| 285_M | 288_L | 1.590 | 0.99 |
| 243_R | 246_P | 1.567 | 0.99 |
| 327_K | 330_T | 1.469 | 0.99 |
| 306_M | 309_P | 1.453 | 0.99 |
| 29_G | 87_L | 1.450 | 0.99 |
| 50_F | 65_L | 1.450 | 0.99 |
| 107_V | 157_W | 1.443 | 0.99 |
| 296_P | 299_E | 1.440 | 0.99 |
| 288_L | 291_S | 1.431 | 0.98 |
| 59_V | 63_F | 1.427 | 0.98 |
| 309_P | 312_Q | 1.426 | 0.98 |
| 275_K | 278_E | 1.426 | 0.98 |
| 288_L | 292_E | 1.423 | 0.98 |
| 322_S | 327_K | 1.410 | 0.98 |
| 235_G | 238_S | 1.407 | 0.98 |
| 241_S | 244_S | 1.404 | 0.98 |
| 160_A | 163_F | 1.397 | 0.98 |
| 121_F | 125_F | 1.371 | 0.98 |
| 307_V | 312_Q | 1.370 | 0.98 |
| 326_V | 329_P | 1.368 | 0.98 |
| 244_S | 247_G | 1.362 | 0.98 |
| 259_C | 262_C | 1.361 | 0.98 |
| 283_G | 286_E | 1.348 | 0.98 |
| 284_S | 287_S | 1.343 | 0.97 |
| 285_M | 289_T | 1.331 | 0.97 |
| 268_L | 271_A | 1.322 | 0.97 |
| 322_S | 325_T | 1.316 | 0.97 |
| 308_D | 316_K | 1.315 | 0.97 |
| 310_E | 313_A | 1.309 | 0.97 |
| 324_N | 327_K | 1.309 | 0.97 |
| 293_G | 296_P | 1.309 | 0.97 |
| 106_Y | 381_Y | 1.282 | 0.96 |
| 110_N | 113_V | 1.279 | 0.96 |
| 288_L | 296_P | 1.277 | 0.96 |
| 308_D | 315_T | 1.271 | 0.96 |
| 260_C | 263_C | 1.266 | 0.96 |
| 270_Q | 276_E | 1.266 | 0.96 |
| 27_F | 30_I | 1.265 | 0.96 |
| 244_S | 248_A | 1.264 | 0.96 |
| 261_R | 266_P | 1.261 | 0.96 |
| 288_L | 293_G | 1.261 | 0.96 |
| 325_T | 328_R | 1.259 | 0.96 |
| 311_A | 314_P | 1.255 | 0.96 |
| 233_K | 236_G | 1.249 | 0.96 |
| 122_D | 133_Y | 1.248 | 0.96 |
| 319_P | 324_N | 1.247 | 0.96 |
| 271_A | 276_E | 1.240 | 0.95 |
| 305_P | 308_D | 1.234 | 0.95 |
| 247_G | 251_S | 1.230 | 0.95 |
| 333_G | 336_R | 1.228 | 0.95 |
| 248_A | 251_S | 1.227 | 0.95 |
| 243_R | 248_A | 1.226 | 0.95 |
| 301_V | 304_M | 1.222 | 0.95 |
| 71_D | 112_S | 1.222 | 0.95 |
| 321_S | 326_V | 1.222 | 0.95 |
| 269_L | 272_Y | 1.220 | 0.95 |
| 209_W | 213_R | 1.220 | 0.95 |
| 290_S | 296_P | 1.219 | 0.95 |
| 264_R | 267_R | 1.219 | 0.95 |
| 293_G | 297_G | 1.219 | 0.95 |
| 273_S | 278_E | 1.218 | 0.95 |
| 286_E | 289_T | 1.218 | 0.95 |
| 71_D | 123_R | 1.217 | 0.95 |
| 398_T | 402_L | 1.216 | 0.95 |
| 256_P | 259_C | 1.215 | 0.95 |
| 193_A | 385_V | 1.212 | 0.95 |
| 307_V | 310_E | 1.209 | 0.94 |
| 242_E | 246_P | 1.208 | 0.94 |
| 316_K | 320_R | 1.207 | 0.94 |
| 289_T | 292_E | 1.205 | 0.94 |
| 270_Q | 273_S | 1.203 | 0.94 |
| 303_K | 306_M | 1.201 | 0.94 |
| 272_Y | 275_K | 1.197 | 0.94 |
| 126_S | 130_P | 1.196 | 0.94 |
| 242_E | 245_Q | 1.195 | 0.94 |
| 245_Q | 248_A | 1.190 | 0.94 |
| 22_P | 26_A | 1.189 | 0.94 |
| 287_S | 294_E | 1.187 | 0.94 |
| 122_D | 363_A | 1.186 | 0.94 |
| 282_E | 286_E | 1.184 | 0.94 |
| 430_R | 434_L | 1.183 | 0.94 |
| 201_V | 375_I | 1.183 | 0.94 |
| 414_N | 418_Y | 1.183 | 0.94 |
| 249_E | 253_E | 1.179 | 0.93 |
| 255_P | 258_R | 1.177 | 0.93 |
| 264_R | 268_L | 1.175 | 0.93 |
| 248_A | 256_P | 1.175 | 0.93 |
| 271_A | 275_K | 1.173 | 0.93 |
| 273_S | 276_E | 1.165 | 0.93 |
| 292_E | 295_E | 1.164 | 0.93 |
| 287_S | 291_S | 1.163 | 0.93 |
| 212_Y | 215_T | 1.162 | 0.93 |
| 378_W | 407_C | 1.162 | 0.93 |
| 281_D | 286_E | 1.162 | 0.93 |
| 246_P | 249_E | 1.160 | 0.93 |
| 284_S | 295_E | 1.158 | 0.93 |
| 241_S | 251_S | 1.156 | 0.93 |
| 113_V | 374_F | 1.153 | 0.92 |
| 258_R | 266_P | 1.150 | 0.92 |
| 257_G | 265_A | 1.147 | 0.92 |
| 318_P | 323_P | 1.144 | 0.92 |
| 303_K | 307_V | 1.140 | 0.92 |
| 317_Q | 320_R | 1.139 | 0.92 |
| 263_C | 266_P | 1.137 | 0.92 |
| 313_A | 318_P | 1.136 | 0.92 |
| 113_V | 382_N | 1.136 | 0.92 |
| 323_P | 326_V | 1.136 | 0.92 |
| 315_T | 318_P | 1.131 | 0.91 |
| 283_G | 288_L | 1.129 | 0.91 |
| 234_G | 238_S | 1.128 | 0.91 |
| 242_E | 248_A | 1.128 | 0.91 |
| 259_C | 266_P | 1.126 | 0.91 |
| 294_E | 297_G | 1.126 | 0.91 |
| 243_R | 250_G | 1.124 | 0.91 |
| 63_F | 142_A | 1.123 | 0.91 |
| 248_A | 252_P | 1.122 | 0.91 |
| 243_R | 251_S | 1.122 | 0.91 |
| 311_A | 315_T | 1.120 | 0.91 |
| 313_A | 316_K | 1.114 | 0.91 |
| 74_I | 378_W | 1.114 | 0.91 |
| 259_C | 264_R | 1.113 | 0.91 |
| 337_A | 341_Q | 1.110 | 0.90 |
| 335_D | 338_G | 1.110 | 0.90 |
| 249_E | 252_P | 1.109 | 0.90 |
| 324_N | 328_R | 1.109 | 0.90 |
| 282_E | 289_T | 1.109 | 0.90 |
| 286_E | 293_G | 1.107 | 0.90 |
| 282_E | 296_P | 1.104 | 0.90 |
| 304_M | 310_E | 1.104 | 0.90 |
| 312_Q | 317_Q | 1.103 | 0.90 |
| 323_P | 327_K | 1.103 | 0.90 |
| 384_M | 403_G | 1.102 | 0.90 |
| 334_R | 338_G | 1.101 | 0.90 |
| 12_N | 15_V | 1.100 | 0.90 |
| 283_G | 289_T | 1.097 | 0.90 |
| 111_A | 153_S | 1.096 | 0.90 |
| 317_Q | 321_S | 1.096 | 0.90 |
| 360_E | 364_A | 1.095 | 0.90 |
| 257_G | 263_C | 1.094 | 0.90 |
| 305_P | 309_P | 1.091 | 0.89 |
| 254_T | 263_C | 1.091 | 0.89 |
| 257_G | 261_R | 1.084 | 0.89 |
| 283_G | 290_S | 1.081 | 0.89 |
| 312_Q | 316_K | 1.081 | 0.89 |
| 308_D | 311_A | 1.080 | 0.89 |
| 111_A | 115_N | 1.079 | 0.89 |
| 323_P | 331_K | 1.079 | 0.89 |
| 249_E | 266_P | 1.078 | 0.89 |
| 282_E | 291_S | 1.078 | 0.89 |
| 47_L | 65_L | 1.078 | 0.89 |
| 252_P | 256_P | 1.077 | 0.89 |
| 317_Q | 331_K | 1.076 | 0.89 |
| 308_D | 313_A | 1.074 | 0.88 |
| 283_G | 287_S | 1.073 | 0.88 |
| 324_N | 330_T | 1.073 | 0.88 |
| 295_E | 299_E | 1.071 | 0.88 |
| 150_W | 415_P | 1.068 | 0.88 |
| 14_T | 17_A | 1.068 | 0.88 |
| 240_S | 246_P | 1.066 | 0.88 |
| 312_Q | 322_S | 1.066 | 0.88 |
| 71_D | 414_N | 1.065 | 0.88 |
| 304_M | 318_P | 1.065 | 0.88 |
| 204_M | 371_L | 1.065 | 0.88 |
| 263_C | 267_R | 1.063 | 0.88 |
| 309_P | 313_A | 1.061 | 0.88 |
| 251_S | 254_T | 1.059 | 0.88 |
| 67_L | 71_D | 1.054 | 0.87 |
| 70_A | 115_N | 1.052 | 0.87 |
| 280_E | 289_T | 1.050 | 0.87 |
| 283_G | 298_S | 1.049 | 0.87 |
| 42_G | 68_A | 1.043 | 0.86 |
| 268_L | 273_S | 1.041 | 0.86 |
| 212_Y | 216_E | 1.041 | 0.86 |
| 261_R | 265_A | 1.040 | 0.86 |
| 313_A | 320_R | 1.040 | 0.86 |
| 315_T | 328_R | 1.039 | 0.86 |
| 411_S | 415_P | 1.038 | 0.86 |
| 272_Y | 276_E | 1.038 | 0.86 |
| 282_E | 290_S | 1.038 | 0.86 |
| 331_K | 335_D | 1.036 | 0.86 |
| 18_P | 21_G | 1.036 | 0.86 |
| 192_T | 196_A | 1.035 | 0.86 |
| 15_V | 18_P | 1.035 | 0.86 |
| 267_R | 271_A | 1.034 | 0.86 |
| 304_M | 308_D | 1.033 | 0.86 |
| 118_L | 149_A | 1.031 | 0.86 |
| 122_D | 126_S | 1.031 | 0.86 |
| 160_A | 164_W | 1.030 | 0.85 |
| 257_G | 264_R | 1.029 | 0.85 |
| 244_S | 251_S | 1.028 | 0.85 |
| 120_S | 129_R | 1.025 | 0.85 |
| 143_A | 147_G | 1.025 | 0.85 |
| 332_K | 336_R | 1.022 | 0.85 |
| 240_S | 248_A | 1.022 | 0.85 |
| 301_V | 305_P | 1.021 | 0.85 |
| 284_S | 291_S | 1.019 | 0.85 |
| 316_K | 324_N | 1.017 | 0.84 |
| 260_C | 265_A | 1.016 | 0.84 |
| 105_D | 109_S | 1.014 | 0.84 |
| 180_I | 196_A | 1.014 | 0.84 |
| 118_L | 145_M | 1.010 | 0.84 |
| 285_M | 290_S | 1.009 | 0.84 |
| 312_Q | 315_T | 1.009 | 0.84 |
| 293_G | 299_E | 1.005 | 0.84 |
| 129_R | 132_S | 1.004 | 0.83 |
| 139_P | 209_W | 1.003 | 0.83 |
| 292_E | 297_G | 1.003 | 0.83 |
| 410_N | 425_F | 1.002 | 0.83 |
| 282_E | 285_M | 1.001 | 0.83 |
| 334_R | 337_A | 1.001 | 0.83 |
| 410_N | 414_N | 1.001 | 0.83 |
| 318_P | 326_V | 1.000 | 0.83 |
| 46_V | 415_P | 1.000 | 0.83 |
| 247_G | 253_E | 1.000 | 0.83 |
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 | |
| 3uonA | 1 | 0.8957 | 100 | 0.32 | Contact Map |
| 2rh1A | 1 | 0.8935 | 100 | 0.335 | Contact Map |
| 4pxzA | 1 | 0.8217 | 100 | 0.336 | Contact Map |
| 4grvA | 1 | 0.9 | 100 | 0.343 | Contact Map |
| 3vw7A | 1 | 0.8761 | 100 | 0.351 | Contact Map |
| 4u15A | 2 | 0.85 | 100 | 0.352 | Contact Map |
| 4iarA | 1 | 0.8239 | 100 | 0.352 | Contact Map |
| 3oduA | 2 | 0.9196 | 100 | 0.354 | Contact Map |
| 3rzeA | 1 | 0.8652 | 100 | 0.354 | Contact Map |
| 3emlA | 1 | 0.8891 | 100 | 0.354 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)