| CN |
| ID: | 1443216220 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 344 (344) | ||
| Sequences: | 372 (231.2) | ||
| Seq/Len: | 1.081 | ||
| Nf(neff/√len): | 12.5 |
HHblits Results: (2015_06)
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: 1.081).
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 |
| 269_L | 272_A | 2.969 | 1.00 |
| 270_E | 274_Y | 2.341 | 0.99 |
| 269_L | 274_Y | 2.202 | 0.98 |
| 28_M | 31_L | 2.166 | 0.98 |
| 304_S | 310_A | 2.115 | 0.97 |
| 38_S | 42_L | 1.862 | 0.94 |
| 304_S | 307_L | 1.830 | 0.93 |
| 39_E | 46_N | 1.806 | 0.92 |
| 307_L | 310_A | 1.713 | 0.89 |
| 200_S | 337_N | 1.704 | 0.89 |
| 141_I | 154_K | 1.635 | 0.86 |
| 272_A | 278_T | 1.622 | 0.85 |
| 269_L | 273_Q | 1.621 | 0.85 |
| 92_F | 171_S | 1.609 | 0.85 |
| 269_L | 278_T | 1.572 | 0.83 |
| 137_I | 201_R | 1.534 | 0.81 |
| 270_E | 273_Q | 1.524 | 0.80 |
| 93_Q | 194_V | 1.508 | 0.79 |
| 110_F | 184_L | 1.507 | 0.79 |
| 38_S | 46_N | 1.497 | 0.79 |
| 283_D | 287_G | 1.495 | 0.78 |
| 46_N | 49_Q | 1.483 | 0.78 |
| 42_L | 274_Y | 1.460 | 0.76 |
| 46_N | 103_D | 1.424 | 0.74 |
| 150_P | 269_L | 1.418 | 0.73 |
| 327_L | 339_F | 1.412 | 0.73 |
| 102_V | 273_Q | 1.410 | 0.72 |
| 103_D | 272_A | 1.376 | 0.70 |
| 26_E | 78_I | 1.372 | 0.70 |
| 274_Y | 278_T | 1.369 | 0.69 |
| 322_A | 327_L | 1.351 | 0.68 |
| 282_S | 285_N | 1.343 | 0.67 |
| 1_M | 9_E | 1.343 | 0.67 |
| 267_P | 270_E | 1.341 | 0.67 |
| 268_Q | 274_Y | 1.341 | 0.67 |
| 251_E | 255_R | 1.335 | 0.66 |
| 49_Q | 280_F | 1.335 | 0.66 |
| 103_D | 269_L | 1.333 | 0.66 |
| 226_P | 229_E | 1.331 | 0.66 |
| 285_N | 291_E | 1.331 | 0.66 |
| 95_S | 112_R | 1.324 | 0.66 |
| 143_W | 180_L | 1.317 | 0.65 |
| 185_T | 190_H | 1.316 | 0.65 |
| 39_E | 43_Q | 1.315 | 0.65 |
| 49_Q | 79_Y | 1.313 | 0.65 |
| 250_N | 302_F | 1.307 | 0.64 |
| 45_I | 269_L | 1.296 | 0.63 |
| 281_K | 294_E | 1.286 | 0.62 |
| 1_M | 12_A | 1.285 | 0.62 |
| 284_L | 290_A | 1.285 | 0.62 |
| 18_T | 343_D | 1.280 | 0.62 |
| 307_L | 318_G | 1.272 | 0.61 |
| 81_Q | 129_F | 1.271 | 0.61 |
| 270_E | 280_F | 1.260 | 0.60 |
| 273_Q | 278_T | 1.258 | 0.60 |
| 267_P | 272_A | 1.254 | 0.59 |
| 42_L | 45_I | 1.247 | 0.59 |
| 12_A | 15_I | 1.243 | 0.58 |
| 223_S | 269_L | 1.243 | 0.58 |
| 138_W | 180_L | 1.236 | 0.58 |
| 270_E | 278_T | 1.233 | 0.57 |
| 103_D | 274_Y | 1.229 | 0.57 |
| 49_Q | 178_P | 1.227 | 0.57 |
| 257_T | 315_A | 1.227 | 0.57 |
| 6_E | 10_T | 1.221 | 0.56 |
| 328_L | 339_F | 1.220 | 0.56 |
| 279_K | 292_R | 1.220 | 0.56 |
| 158_V | 170_S | 1.219 | 0.56 |
| 221_H | 294_E | 1.207 | 0.55 |
| 37_L | 273_Q | 1.203 | 0.55 |
| 109_Q | 113_S | 1.197 | 0.54 |
| 83_H | 105_F | 1.197 | 0.54 |
| 9_E | 19_I | 1.193 | 0.54 |
| 42_L | 46_N | 1.188 | 0.53 |
| 209_I | 306_H | 1.187 | 0.53 |
| 152_Q | 201_R | 1.184 | 0.53 |
| 79_Y | 320_A | 1.177 | 0.52 |
| 268_Q | 273_Q | 1.173 | 0.52 |
| 267_P | 278_T | 1.170 | 0.51 |
| 81_Q | 127_I | 1.167 | 0.51 |
| 141_I | 156_T | 1.166 | 0.51 |
| 18_T | 231_C | 1.160 | 0.51 |
| 43_Q | 46_N | 1.158 | 0.50 |
| 151_N | 301_K | 1.158 | 0.50 |
| 271_F | 274_Y | 1.156 | 0.50 |
| 77_I | 230_R | 1.152 | 0.50 |
| 256_I | 322_A | 1.148 | 0.49 |
| 158_V | 180_L | 1.148 | 0.49 |
| 58_L | 63_E | 1.148 | 0.49 |
| 322_A | 339_F | 1.146 | 0.49 |
| 91_V | 122_L | 1.145 | 0.49 |
| 136_A | 161_Y | 1.145 | 0.49 |
| 56_Q | 166_Y | 1.143 | 0.49 |
| 267_P | 273_Q | 1.140 | 0.49 |
| 1_M | 154_K | 1.138 | 0.48 |
| 179_L | 182_Q | 1.138 | 0.48 |
| 308_L | 339_F | 1.136 | 0.48 |
| 94_M | 337_N | 1.125 | 0.47 |
| 64_E | 302_F | 1.125 | 0.47 |
| 143_W | 164_T | 1.124 | 0.47 |
| 41_Q | 46_N | 1.121 | 0.47 |
| 55_V | 75_L | 1.120 | 0.47 |
| 262_G | 312_K | 1.119 | 0.47 |
| 57_D | 61_L | 1.115 | 0.46 |
| 17_R | 180_L | 1.115 | 0.46 |
| 221_H | 237_N | 1.113 | 0.46 |
| 320_A | 336_M | 1.111 | 0.46 |
| 1_M | 6_E | 1.110 | 0.46 |
| 13_E | 200_S | 1.109 | 0.46 |
| 159_V | 164_T | 1.101 | 0.45 |
| 163_Q | 334_K | 1.100 | 0.45 |
| 131_D | 138_W | 1.099 | 0.45 |
| 10_T | 65_K | 1.098 | 0.45 |
| 63_E | 66_C | 1.097 | 0.45 |
| 200_S | 206_L | 1.097 | 0.45 |
| 339_F | 344_K | 1.097 | 0.45 |
| 42_L | 103_D | 1.093 | 0.44 |
| 42_L | 269_L | 1.093 | 0.44 |
| 37_L | 41_Q | 1.091 | 0.44 |
| 92_F | 169_T | 1.090 | 0.44 |
| 14_F | 201_R | 1.090 | 0.44 |
| 131_D | 134_E | 1.087 | 0.44 |
| 310_A | 314_L | 1.082 | 0.43 |
| 310_A | 330_C | 1.081 | 0.43 |
| 103_D | 270_E | 1.081 | 0.43 |
| 195_K | 305_P | 1.080 | 0.43 |
| 280_F | 295_P | 1.079 | 0.43 |
| 283_D | 286_G | 1.078 | 0.43 |
| 18_T | 317_A | 1.078 | 0.43 |
| 60_G | 74_L | 1.076 | 0.43 |
| 40_N | 43_Q | 1.075 | 0.43 |
| 150_P | 270_E | 1.071 | 0.42 |
| 57_D | 66_C | 1.070 | 0.42 |
| 46_N | 224_T | 1.066 | 0.42 |
| 46_N | 274_Y | 1.065 | 0.42 |
| 42_L | 272_A | 1.064 | 0.42 |
| 230_R | 233_G | 1.064 | 0.42 |
| 15_I | 72_A | 1.064 | 0.42 |
| 140_R | 261_F | 1.063 | 0.41 |
| 226_P | 236_V | 1.063 | 0.41 |
| 170_S | 209_I | 1.058 | 0.41 |
| 328_L | 332_P | 1.056 | 0.41 |
| 195_K | 208_A | 1.052 | 0.40 |
| 59_V | 72_A | 1.051 | 0.40 |
| 4_A | 33_A | 1.050 | 0.40 |
| 134_E | 167_A | 1.048 | 0.40 |
| 315_A | 322_A | 1.044 | 0.40 |
| 269_L | 275_K | 1.041 | 0.39 |
| 323_P | 338_Y | 1.038 | 0.39 |
| 54_L | 154_K | 1.038 | 0.39 |
| 102_V | 272_A | 1.038 | 0.39 |
| 102_V | 269_L | 1.034 | 0.39 |
| 326_P | 329_T | 1.031 | 0.39 |
| 280_F | 294_E | 1.030 | 0.38 |
| 24_M | 109_Q | 1.029 | 0.38 |
| 205_S | 305_P | 1.024 | 0.38 |
| 299_L | 308_L | 1.021 | 0.38 |
| 74_L | 106_D | 1.020 | 0.38 |
| 39_E | 49_Q | 1.017 | 0.37 |
| 219_E | 333_N | 1.017 | 0.37 |
| 205_S | 209_I | 1.017 | 0.37 |
| 226_P | 237_N | 1.017 | 0.37 |
| 167_A | 180_L | 1.014 | 0.37 |
| 1_M | 311_L | 1.013 | 0.37 |
| 69_I | 335_G | 1.013 | 0.37 |
| 33_A | 70_N | 1.013 | 0.37 |
| 228_Q | 305_P | 1.012 | 0.37 |
| 117_I | 170_S | 1.010 | 0.37 |
| 335_G | 343_D | 1.006 | 0.36 |
| 1_M | 4_A | 1.005 | 0.36 |
| 279_K | 291_E | 1.004 | 0.36 |
| 164_T | 204_D | 1.001 | 0.36 |
| 40_N | 48_R | 1.000 | 0.36 |
| 267_P | 274_Y | 1.000 | 0.36 |
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 | |
| 4je3B | 1 | 0.2093 | 99.8 | 0.792 | Contact Map |
| 4xr7L | 8 | 0.3488 | 36.8 | 0.964 | Contact Map |
| 1jjrA | 1 | 0 | 14.9 | 0.97 | Contact Map |
| 2xvyA | 1 | 0.2384 | 11 | 0.972 | Contact Map |
| 2es9A | 1 | 0.2413 | 9 | 0.973 | Contact Map |
| 2pidA | 2 | 0.2151 | 8.8 | 0.973 | Contact Map |
| 4c3eA | 16 | 0.1279 | 7.6 | 0.974 | Contact Map |
| 2h1vA | 1 | 0.3343 | 6.9 | 0.974 | Contact Map |
| 1h1jS | 1 | 0.1279 | 6.7 | 0.974 | Contact Map |
| 2yxnA | 1 | 0.2122 | 5.9 | 0.975 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)