| VIPR1_HUMAN |
| ID: | 1489196816 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 457 (403) | ||
| Sequences: | 513 (278.6) | ||
| Seq/Len: | 1.273 | ||
| Nf(neff/√len): | 13.9 |
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: 1.273).
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 |
| 389_C | 392_N | 2.874 | 1.00 |
| 389_C | 394_E | 2.580 | 1.00 |
| 388_Y | 392_N | 2.459 | 1.00 |
| 388_Y | 394_E | 2.378 | 0.99 |
| 63_C | 72_C | 2.285 | 0.99 |
| 314_C | 317_R | 2.275 | 0.99 |
| 68_D | 72_C | 2.175 | 0.99 |
| 63_C | 73_W | 2.003 | 0.97 |
| 390_F | 394_E | 1.992 | 0.97 |
| 161_T | 179_M | 1.980 | 0.97 |
| 392_N | 395_V | 1.924 | 0.96 |
| 149_G | 157_L | 1.917 | 0.96 |
| 76_T | 82_V | 1.907 | 0.96 |
| 63_C | 68_D | 1.872 | 0.95 |
| 224_Y | 236_E | 1.811 | 0.94 |
| 312_F | 339_L | 1.779 | 0.94 |
| 54_A | 65_K | 1.647 | 0.90 |
| 342_S | 373_E | 1.611 | 0.88 |
| 65_K | 75_A | 1.588 | 0.87 |
| 297_I | 301_I | 1.574 | 0.86 |
| 164_L | 269_F | 1.567 | 0.86 |
| 171_H | 175_N | 1.560 | 0.86 |
| 68_D | 73_W | 1.544 | 0.85 |
| 388_Y | 395_V | 1.531 | 0.84 |
| 389_C | 393_G | 1.523 | 0.84 |
| 71_T | 84_L | 1.511 | 0.83 |
| 388_Y | 391_L | 1.491 | 0.82 |
| 389_C | 395_V | 1.484 | 0.82 |
| 391_L | 394_E | 1.478 | 0.81 |
| 294_W | 298_K | 1.476 | 0.81 |
| 344_L | 348_P | 1.472 | 0.81 |
| 276_A | 296_I | 1.457 | 0.80 |
| 149_G | 153_S | 1.455 | 0.80 |
| 150_Y | 160_A | 1.444 | 0.79 |
| 255_F | 258_Y | 1.442 | 0.79 |
| 277_R | 283_Y | 1.442 | 0.79 |
| 122_C | 127_K | 1.437 | 0.79 |
| 223_Q | 228_A | 1.435 | 0.79 |
| 398_E | 403_W | 1.432 | 0.78 |
| 315_I | 323_L | 1.432 | 0.78 |
| 236_E | 240_L | 1.431 | 0.78 |
| 390_F | 395_V | 1.430 | 0.78 |
| 172_C | 185_F | 1.427 | 0.78 |
| 222_F | 350_F | 1.374 | 0.74 |
| 418_Y | 421_P | 1.370 | 0.74 |
| 384_V | 392_N | 1.357 | 0.73 |
| 173_T | 184_S | 1.356 | 0.73 |
| 229_N | 353_H | 1.353 | 0.73 |
| 342_S | 370_M | 1.345 | 0.72 |
| 216_K | 282_D | 1.329 | 0.71 |
| 347_I | 374_L | 1.321 | 0.70 |
| 233_L | 312_F | 1.320 | 0.70 |
| 146_Y | 177_I | 1.320 | 0.70 |
| 175_N | 273_W | 1.318 | 0.70 |
| 175_N | 188_R | 1.311 | 0.69 |
| 236_E | 263_W | 1.310 | 0.69 |
| 173_T | 176_Y | 1.306 | 0.69 |
| 178_H | 181_L | 1.295 | 0.68 |
| 401_R | 404_R | 1.291 | 0.68 |
| 268_T | 272_V | 1.286 | 0.67 |
| 384_V | 394_E | 1.277 | 0.66 |
| 174_R | 178_H | 1.275 | 0.66 |
| 164_L | 386_I | 1.274 | 0.66 |
| 339_L | 342_S | 1.272 | 0.66 |
| 420_H | 423_G | 1.270 | 0.66 |
| 312_F | 398_E | 1.264 | 0.65 |
| 156_T | 198_A | 1.264 | 0.65 |
| 244_L | 338_R | 1.262 | 0.65 |
| 433_Q | 445_R | 1.258 | 0.65 |
| 215_C | 236_E | 1.256 | 0.65 |
| 153_S | 157_L | 1.251 | 0.64 |
| 156_T | 382_F | 1.250 | 0.64 |
| 312_F | 342_S | 1.233 | 0.62 |
| 169_K | 175_N | 1.232 | 0.62 |
| 188_R | 195_K | 1.229 | 0.62 |
| 63_C | 67_W | 1.229 | 0.62 |
| 147_T | 196_D | 1.228 | 0.62 |
| 67_W | 70_L | 1.225 | 0.62 |
| 297_I | 338_R | 1.224 | 0.62 |
| 234_L | 243_L | 1.223 | 0.61 |
| 190_A | 194_I | 1.217 | 0.61 |
| 417_K | 421_P | 1.210 | 0.60 |
| 264_G | 388_Y | 1.208 | 0.60 |
| 295_W | 299_G | 1.208 | 0.60 |
| 193_F | 342_S | 1.207 | 0.60 |
| 339_L | 374_L | 1.207 | 0.60 |
| 231_F | 261_I | 1.202 | 0.59 |
| 340_A | 347_I | 1.200 | 0.59 |
| 388_Y | 393_G | 1.199 | 0.59 |
| 224_Y | 240_L | 1.192 | 0.59 |
| 253_K | 355_I | 1.191 | 0.58 |
| 146_Y | 150_Y | 1.177 | 0.57 |
| 286_W | 343_T | 1.174 | 0.57 |
| 102_S | 121_A | 1.169 | 0.56 |
| 418_Y | 424_G | 1.168 | 0.56 |
| 173_T | 177_I | 1.164 | 0.56 |
| 159_V | 183_I | 1.164 | 0.56 |
| 169_K | 312_F | 1.161 | 0.56 |
| 232_W | 236_E | 1.158 | 0.55 |
| 233_L | 342_S | 1.155 | 0.55 |
| 146_Y | 164_L | 1.154 | 0.55 |
| 420_H | 432_T | 1.153 | 0.55 |
| 349_L | 385_A | 1.151 | 0.55 |
| 67_W | 72_C | 1.144 | 0.54 |
| 158_L | 186_I | 1.143 | 0.54 |
| 71_T | 352_V | 1.143 | 0.54 |
| 309_F | 379_F | 1.142 | 0.54 |
| 424_G | 430_C | 1.138 | 0.53 |
| 431_S | 434_V | 1.135 | 0.53 |
| 425_S | 429_T | 1.134 | 0.53 |
| 175_N | 196_D | 1.134 | 0.53 |
| 105_C | 122_C | 1.128 | 0.52 |
| 239_Y | 262_G | 1.124 | 0.52 |
| 147_T | 164_L | 1.122 | 0.52 |
| 233_L | 244_L | 1.122 | 0.52 |
| 342_S | 398_E | 1.121 | 0.52 |
| 429_T | 444_A | 1.119 | 0.51 |
| 241_Y | 246_V | 1.118 | 0.51 |
| 295_W | 302_L | 1.115 | 0.51 |
| 147_T | 176_Y | 1.114 | 0.51 |
| 216_K | 343_T | 1.113 | 0.51 |
| 63_C | 74_P | 1.113 | 0.51 |
| 287_D | 342_S | 1.112 | 0.51 |
| 175_N | 195_K | 1.110 | 0.50 |
| 432_T | 443_G | 1.108 | 0.50 |
| 346_L | 351_G | 1.105 | 0.50 |
| 195_K | 312_F | 1.104 | 0.50 |
| 184_S | 353_H | 1.104 | 0.50 |
| 434_V | 443_G | 1.102 | 0.50 |
| 237_G | 319_L | 1.099 | 0.49 |
| 160_A | 175_N | 1.099 | 0.49 |
| 184_S | 229_N | 1.099 | 0.49 |
| 174_R | 181_L | 1.095 | 0.49 |
| 316_I | 320_L | 1.095 | 0.49 |
| 235_V | 273_W | 1.095 | 0.49 |
| 37_C | 46_Q | 1.094 | 0.49 |
| 184_S | 277_R | 1.093 | 0.49 |
| 233_L | 339_L | 1.092 | 0.49 |
| 195_K | 347_I | 1.090 | 0.49 |
| 176_Y | 196_D | 1.087 | 0.48 |
| 271_M | 313_I | 1.086 | 0.48 |
| 170_L | 224_Y | 1.083 | 0.48 |
| 309_F | 370_M | 1.081 | 0.48 |
| 185_F | 188_R | 1.081 | 0.48 |
| 430_C | 434_V | 1.081 | 0.48 |
| 381_G | 384_V | 1.081 | 0.48 |
| 156_T | 162_A | 1.081 | 0.48 |
| 229_N | 263_W | 1.069 | 0.46 |
| 153_S | 167_F | 1.068 | 0.46 |
| 271_M | 275_I | 1.064 | 0.46 |
| 190_A | 271_M | 1.059 | 0.45 |
| 421_P | 424_G | 1.057 | 0.45 |
| 224_Y | 263_W | 1.057 | 0.45 |
| 229_N | 232_W | 1.055 | 0.45 |
| 382_F | 386_I | 1.052 | 0.45 |
| 381_G | 392_N | 1.051 | 0.45 |
| 315_I | 322_K | 1.051 | 0.45 |
| 310_I | 313_I | 1.049 | 0.44 |
| 158_L | 275_I | 1.049 | 0.44 |
| 419_R | 422_S | 1.046 | 0.44 |
| 308_N | 322_K | 1.045 | 0.44 |
| 247_S | 261_I | 1.045 | 0.44 |
| 196_D | 312_F | 1.044 | 0.44 |
| 77_P | 80_Q | 1.044 | 0.44 |
| 182_F | 189_A | 1.044 | 0.44 |
| 420_H | 424_G | 1.044 | 0.44 |
| 109_G | 112_H | 1.043 | 0.44 |
| 68_D | 105_C | 1.043 | 0.44 |
| 68_D | 87_P | 1.041 | 0.44 |
| 275_I | 278_I | 1.040 | 0.44 |
| 312_F | 374_L | 1.039 | 0.43 |
| 270_T | 274_T | 1.038 | 0.43 |
| 312_F | 353_H | 1.038 | 0.43 |
| 72_C | 87_P | 1.037 | 0.43 |
| 359_F | 362_D | 1.036 | 0.43 |
| 227_M | 403_W | 1.036 | 0.43 |
| 188_R | 312_F | 1.035 | 0.43 |
| 236_E | 239_Y | 1.034 | 0.43 |
| 228_A | 258_Y | 1.032 | 0.43 |
| 419_R | 428_A | 1.028 | 0.42 |
| 266_P | 285_C | 1.027 | 0.42 |
| 428_A | 444_A | 1.026 | 0.42 |
| 309_F | 317_R | 1.023 | 0.42 |
| 79_G | 242_T | 1.023 | 0.42 |
| 339_L | 398_E | 1.019 | 0.42 |
| 246_V | 282_D | 1.017 | 0.41 |
| 170_L | 178_H | 1.016 | 0.41 |
| 344_L | 347_I | 1.015 | 0.41 |
| 103_R | 188_R | 1.014 | 0.41 |
| 238_L | 248_F | 1.013 | 0.41 |
| 289_I | 379_F | 1.011 | 0.41 |
| 235_V | 261_I | 1.011 | 0.41 |
| 420_H | 425_S | 1.010 | 0.41 |
| 230_F | 301_I | 1.010 | 0.41 |
| 215_C | 224_Y | 1.009 | 0.41 |
| 236_E | 262_G | 1.008 | 0.41 |
| 418_Y | 430_C | 1.008 | 0.41 |
| 434_V | 445_R | 1.007 | 0.40 |
| 189_A | 195_K | 1.007 | 0.40 |
| 417_K | 420_H | 1.006 | 0.40 |
| 194_I | 202_S | 1.006 | 0.40 |
| 421_P | 425_S | 1.005 | 0.40 |
| 398_E | 401_R | 1.004 | 0.40 |
| 429_T | 432_T | 1.003 | 0.40 |
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 | |
| 4k5yA | 3 | 0.547 | 100 | 0.625 | Contact Map |
| 4l6rA | 1 | 0.8162 | 100 | 0.695 | Contact Map |
| 4jkvA | 2 | 0.7681 | 100 | 0.837 | Contact Map |
| 4qinA | 1 | 0.6652 | 99.9 | 0.845 | Contact Map |
| 2qkhA | 1 | 0.2013 | 99.9 | 0.846 | Contact Map |
| 4hj0A | 2 | 0.1969 | 99.9 | 0.853 | Contact Map |
| 3c5tA | 1 | 0.2101 | 99.9 | 0.854 | Contact Map |
| 4ersA | 1 | 0.1969 | 99.9 | 0.856 | Contact Map |
| 4rwfA | 1 | 0 | 99.9 | 0.862 | Contact Map |
| 3n94A | 1 | 0.2757 | 99.9 | 0.867 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)