| CARESD32 |
| ID: | 1464823230 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 435 (403) | ||
| Sequences: | 866 (604.6) | ||
| Seq/Len: | 2.149 | ||
| Nf(neff/√len): | 30.1 |
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: 2.149).
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 |
| 392_Y | 417_P | 4.553 | 1.00 |
| 410_N | 414_S | 3.215 | 1.00 |
| 291_W | 295_R | 2.672 | 1.00 |
| 273_P | 276_G | 2.415 | 1.00 |
| 63_V | 170_L | 2.409 | 1.00 |
| 237_Q | 241_I | 2.304 | 1.00 |
| 62_L | 93_W | 2.299 | 1.00 |
| 252_K | 256_Y | 2.230 | 1.00 |
| 184_Q | 188_A | 2.222 | 1.00 |
| 274_E | 283_G | 2.209 | 1.00 |
| 300_S | 304_R | 2.181 | 1.00 |
| 167_S | 186_F | 2.156 | 1.00 |
| 289_D | 305_K | 2.141 | 1.00 |
| 20_F | 264_S | 2.108 | 0.99 |
| 183_F | 187_Q | 2.090 | 0.99 |
| 401_S | 404_S | 1.983 | 0.99 |
| 69_C | 89_F | 1.947 | 0.99 |
| 350_C | 417_P | 1.928 | 0.99 |
| 402_L | 406_W | 1.912 | 0.99 |
| 306_W | 314_L | 1.912 | 0.99 |
| 95_T | 340_L | 1.849 | 0.98 |
| 347_G | 351_W | 1.821 | 0.98 |
| 319_F | 345_V | 1.669 | 0.96 |
| 41_Y | 186_F | 1.638 | 0.96 |
| 129_R | 167_S | 1.609 | 0.95 |
| 347_G | 396_A | 1.591 | 0.95 |
| 307_N | 313_W | 1.585 | 0.94 |
| 86_T | 134_S | 1.578 | 0.94 |
| 231_G | 243_V | 1.566 | 0.94 |
| 66_P | 123_L | 1.558 | 0.94 |
| 236_Q | 239_E | 1.558 | 0.94 |
| 331_F | 334_S | 1.552 | 0.94 |
| 263_D | 267_H | 1.547 | 0.94 |
| 25_L | 29_L | 1.540 | 0.93 |
| 252_K | 294_E | 1.531 | 0.93 |
| 375_R | 379_R | 1.518 | 0.93 |
| 217_C | 220_V | 1.512 | 0.92 |
| 383_W | 387_Q | 1.493 | 0.92 |
| 289_D | 292_T | 1.488 | 0.92 |
| 289_D | 308_Q | 1.485 | 0.92 |
| 414_S | 417_P | 1.479 | 0.91 |
| 43_F | 47_G | 1.475 | 0.91 |
| 123_L | 130_V | 1.452 | 0.90 |
| 132_S | 180_L | 1.440 | 0.90 |
| 344_Q | 348_F | 1.418 | 0.89 |
| 306_W | 334_S | 1.416 | 0.89 |
| 124_M | 306_W | 1.410 | 0.89 |
| 64_F | 68_V | 1.403 | 0.88 |
| 98_H | 124_M | 1.402 | 0.88 |
| 69_C | 73_L | 1.391 | 0.88 |
| 23_A | 172_F | 1.384 | 0.87 |
| 315_R | 320_Q | 1.375 | 0.87 |
| 322_S | 329_Q | 1.372 | 0.87 |
| 389_I | 420_Y | 1.346 | 0.85 |
| 118_I | 121_S | 1.345 | 0.85 |
| 149_F | 152_R | 1.344 | 0.85 |
| 74_L | 133_L | 1.340 | 0.85 |
| 335_A | 345_V | 1.335 | 0.85 |
| 338_H | 343_G | 1.333 | 0.84 |
| 335_A | 338_H | 1.315 | 0.83 |
| 314_L | 330_T | 1.314 | 0.83 |
| 48_G | 57_G | 1.314 | 0.83 |
| 318_V | 333_F | 1.312 | 0.83 |
| 239_E | 243_V | 1.311 | 0.83 |
| 266_L | 274_E | 1.302 | 0.83 |
| 218_L | 240_C | 1.300 | 0.82 |
| 406_W | 410_N | 1.287 | 0.82 |
| 339_G | 344_Q | 1.286 | 0.81 |
| 183_F | 190_V | 1.277 | 0.81 |
| 413_N | 418_M | 1.267 | 0.80 |
| 183_F | 252_K | 1.267 | 0.80 |
| 118_I | 124_M | 1.266 | 0.80 |
| 353_V | 421_C | 1.265 | 0.80 |
| 95_T | 102_H | 1.262 | 0.80 |
| 248_A | 254_T | 1.257 | 0.79 |
| 128_Q | 132_S | 1.257 | 0.79 |
| 170_L | 175_L | 1.253 | 0.79 |
| 346_F | 409_C | 1.253 | 0.79 |
| 255_Y | 259_W | 1.252 | 0.79 |
| 20_F | 23_A | 1.251 | 0.79 |
| 277_Q | 281_E | 1.248 | 0.79 |
| 70_A | 90_Q | 1.245 | 0.78 |
| 311_A | 326_P | 1.242 | 0.78 |
| 303_S | 347_G | 1.240 | 0.78 |
| 129_R | 182_S | 1.239 | 0.78 |
| 340_L | 345_V | 1.235 | 0.78 |
| 22_F | 172_F | 1.229 | 0.77 |
| 97_C | 123_L | 1.224 | 0.77 |
| 256_Y | 294_E | 1.223 | 0.77 |
| 216_E | 257_S | 1.221 | 0.77 |
| 334_S | 338_H | 1.213 | 0.76 |
| 132_S | 317_L | 1.210 | 0.76 |
| 171_F | 174_A | 1.209 | 0.76 |
| 339_G | 348_F | 1.199 | 0.75 |
| 123_L | 128_Q | 1.198 | 0.75 |
| 306_W | 313_W | 1.197 | 0.75 |
| 133_L | 137_I | 1.195 | 0.74 |
| 152_R | 216_E | 1.191 | 0.74 |
| 338_H | 348_F | 1.188 | 0.74 |
| 121_S | 124_M | 1.188 | 0.74 |
| 249_G | 252_K | 1.186 | 0.74 |
| 396_A | 405_L | 1.185 | 0.74 |
| 152_R | 155_L | 1.180 | 0.73 |
| 125_L | 130_V | 1.179 | 0.73 |
| 231_G | 240_C | 1.178 | 0.73 |
| 94_Q | 97_C | 1.174 | 0.73 |
| 139_E | 160_C | 1.174 | 0.73 |
| 302_F | 390_I | 1.168 | 0.72 |
| 136_D | 182_S | 1.166 | 0.72 |
| 119_T | 124_M | 1.164 | 0.72 |
| 252_K | 306_W | 1.158 | 0.71 |
| 161_K | 164_P | 1.158 | 0.71 |
| 314_L | 334_S | 1.157 | 0.71 |
| 256_Y | 306_W | 1.155 | 0.71 |
| 156_S | 217_C | 1.144 | 0.70 |
| 163_L | 171_F | 1.144 | 0.70 |
| 41_Y | 44_L | 1.143 | 0.70 |
| 389_I | 406_W | 1.142 | 0.70 |
| 66_P | 70_A | 1.140 | 0.69 |
| 350_C | 393_I | 1.139 | 0.69 |
| 352_A | 358_D | 1.134 | 0.69 |
| 286_P | 308_Q | 1.132 | 0.69 |
| 248_A | 394_M | 1.131 | 0.68 |
| 346_F | 406_W | 1.129 | 0.68 |
| 132_S | 165_Y | 1.127 | 0.68 |
| 336_W | 410_N | 1.126 | 0.68 |
| 61_V | 65_T | 1.123 | 0.68 |
| 128_Q | 133_L | 1.120 | 0.67 |
| 256_Y | 334_S | 1.110 | 0.66 |
| 147_G | 151_S | 1.108 | 0.66 |
| 301_V | 305_K | 1.108 | 0.66 |
| 153_S | 361_I | 1.107 | 0.66 |
| 303_S | 322_S | 1.103 | 0.66 |
| 21_P | 24_L | 1.099 | 0.65 |
| 212_I | 257_S | 1.096 | 0.65 |
| 187_Q | 191_Q | 1.093 | 0.65 |
| 335_A | 343_G | 1.086 | 0.64 |
| 264_S | 268_A | 1.084 | 0.64 |
| 237_Q | 242_Y | 1.084 | 0.64 |
| 283_G | 286_P | 1.082 | 0.63 |
| 349_V | 353_V | 1.081 | 0.63 |
| 93_W | 128_Q | 1.081 | 0.63 |
| 251_F | 254_T | 1.079 | 0.63 |
| 98_H | 120_L | 1.079 | 0.63 |
| 69_C | 240_C | 1.078 | 0.63 |
| 271_F | 290_I | 1.073 | 0.63 |
| 54_A | 57_G | 1.072 | 0.62 |
| 338_H | 344_Q | 1.068 | 0.62 |
| 93_W | 97_C | 1.065 | 0.62 |
| 341_H | 344_Q | 1.061 | 0.61 |
| 98_H | 101_L | 1.059 | 0.61 |
| 306_W | 351_W | 1.056 | 0.61 |
| 185_R | 188_A | 1.054 | 0.60 |
| 91_M | 333_F | 1.054 | 0.60 |
| 369_I | 375_R | 1.053 | 0.60 |
| 182_S | 185_R | 1.052 | 0.60 |
| 322_S | 325_W | 1.051 | 0.60 |
| 331_F | 351_W | 1.050 | 0.60 |
| 70_A | 86_T | 1.049 | 0.60 |
| 337_W | 348_F | 1.045 | 0.59 |
| 125_L | 218_L | 1.044 | 0.59 |
| 64_F | 96_L | 1.043 | 0.59 |
| 67_A | 169_L | 1.041 | 0.59 |
| 408_L | 412_Y | 1.040 | 0.59 |
| 306_W | 352_A | 1.040 | 0.59 |
| 95_T | 341_H | 1.039 | 0.59 |
| 323_R | 326_P | 1.038 | 0.59 |
| 98_H | 118_I | 1.038 | 0.59 |
| 161_K | 230_A | 1.037 | 0.59 |
| 266_L | 285_V | 1.037 | 0.59 |
| 27_N | 30_C | 1.034 | 0.58 |
| 214_G | 236_Q | 1.031 | 0.58 |
| 212_I | 264_S | 1.030 | 0.58 |
| 309_S | 312_R | 1.030 | 0.58 |
| 124_M | 334_S | 1.029 | 0.58 |
| 218_L | 222_V | 1.028 | 0.58 |
| 307_N | 338_H | 1.028 | 0.58 |
| 179_S | 186_F | 1.025 | 0.57 |
| 41_Y | 164_P | 1.025 | 0.57 |
| 259_W | 348_F | 1.021 | 0.57 |
| 44_L | 55_A | 1.021 | 0.57 |
| 335_A | 348_F | 1.020 | 0.57 |
| 170_L | 177_G | 1.019 | 0.57 |
| 138_C | 192_G | 1.013 | 0.56 |
| 205_L | 209_G | 1.011 | 0.56 |
| 221_A | 225_V | 1.010 | 0.56 |
| 290_I | 294_E | 1.010 | 0.56 |
| 36_S | 51_L | 1.008 | 0.55 |
| 68_V | 162_A | 1.008 | 0.55 |
| 300_S | 306_W | 1.006 | 0.55 |
| 368_F | 378_Y | 1.005 | 0.55 |
| 333_F | 409_C | 1.005 | 0.55 |
| 328_L | 352_A | 1.003 | 0.55 |
| 205_L | 212_I | 1.003 | 0.55 |
| 99_L | 103_Y | 1.000 | 0.54 |
| 197_H | 218_L | 1.000 | 0.54 |
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 | |
| 4v1aq | 1 | 0.0851 | 2.4 | 0.985 | Contact Map |
| 3p5nA | 2 | 0.2115 | 1.8 | 0.986 | Contact Map |
| 2ls4A | 1 | 0.0552 | 1.5 | 0.986 | Contact Map |
| 1q90L | 1 | 0.0736 | 1.5 | 0.986 | Contact Map |
| 4ogqE | 1 | 0.0713 | 1.4 | 0.986 | Contact Map |
| 1sghB | 1 | 0.0299 | 1.4 | 0.987 | Contact Map |
| 2vdaB | 1 | 0.0575 | 1.1 | 0.987 | Contact Map |
| 3pfzA | 1 | 0.1333 | 1.1 | 0.987 | Contact Map |
| 3rqwA | 10 | 0.1287 | 1 | 0.988 | Contact Map |
| 2l0lA | 1 | 0.0621 | 1 | 0.988 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)