| cat2b |
| ID: | 1430261671 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 281 (264) | ||
| Sequences: | 293 (147.7) | ||
| Seq/Len: | 1.110 | ||
| Nf(neff/√len): | 9.1 |
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: 1.110).
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 |
| 259_K | 273_N | 2.867 | 1.00 |
| 22_A | 92_D | 2.134 | 0.98 |
| 157_I | 188_F | 1.981 | 0.96 |
| 24_L | 43_L | 1.944 | 0.95 |
| 26_V | 159_S | 1.915 | 0.95 |
| 216_K | 261_Y | 1.862 | 0.94 |
| 266_S | 269_Q | 1.836 | 0.93 |
| 64_V | 68_K | 1.809 | 0.93 |
| 109_R | 112_A | 1.710 | 0.90 |
| 22_A | 98_H | 1.678 | 0.88 |
| 13_F | 22_A | 1.640 | 0.87 |
| 153_S | 275_L | 1.604 | 0.85 |
| 211_E | 218_F | 1.594 | 0.85 |
| 134_P | 140_W | 1.565 | 0.83 |
| 24_L | 45_T | 1.546 | 0.82 |
| 61_N | 84_W | 1.521 | 0.81 |
| 135_A | 156_K | 1.510 | 0.80 |
| 223_S | 249_N | 1.489 | 0.79 |
| 22_A | 38_L | 1.470 | 0.77 |
| 30_S | 134_P | 1.462 | 0.77 |
| 225_M | 254_I | 1.448 | 0.76 |
| 233_R | 240_Y | 1.436 | 0.75 |
| 73_N | 140_W | 1.431 | 0.75 |
| 22_A | 225_M | 1.424 | 0.74 |
| 263_N | 266_S | 1.418 | 0.74 |
| 49_T | 279_L | 1.408 | 0.73 |
| 9_C | 26_V | 1.401 | 0.73 |
| 17_Q | 140_W | 1.389 | 0.72 |
| 152_V | 278_K | 1.383 | 0.71 |
| 96_L | 264_N | 1.376 | 0.71 |
| 84_W | 94_V | 1.373 | 0.70 |
| 156_K | 160_Q | 1.365 | 0.70 |
| 27_D | 30_S | 1.360 | 0.69 |
| 134_P | 156_K | 1.359 | 0.69 |
| 195_L | 251_I | 1.358 | 0.69 |
| 26_V | 64_V | 1.357 | 0.69 |
| 28_A | 92_D | 1.355 | 0.69 |
| 113_D | 243_S | 1.329 | 0.67 |
| 210_T | 213_I | 1.327 | 0.67 |
| 55_I | 90_D | 1.319 | 0.66 |
| 24_L | 227_F | 1.319 | 0.66 |
| 192_L | 234_L | 1.305 | 0.65 |
| 5_T | 251_I | 1.295 | 0.64 |
| 218_F | 221_I | 1.292 | 0.64 |
| 22_A | 45_T | 1.287 | 0.63 |
| 96_L | 221_I | 1.267 | 0.61 |
| 62_D | 92_D | 1.267 | 0.61 |
| 143_H | 153_S | 1.265 | 0.61 |
| 173_Y | 243_S | 1.260 | 0.61 |
| 275_L | 278_K | 1.257 | 0.60 |
| 202_S | 207_N | 1.256 | 0.60 |
| 203_S | 268_I | 1.252 | 0.60 |
| 149_M | 153_S | 1.252 | 0.60 |
| 109_R | 144_Q | 1.240 | 0.59 |
| 124_K | 128_H | 1.229 | 0.58 |
| 33_C | 54_D | 1.229 | 0.58 |
| 276_W | 279_L | 1.222 | 0.57 |
| 192_L | 230_I | 1.219 | 0.57 |
| 98_H | 225_M | 1.202 | 0.55 |
| 5_T | 157_I | 1.195 | 0.55 |
| 115_S | 206_Q | 1.193 | 0.54 |
| 30_S | 41_N | 1.191 | 0.54 |
| 252_Y | 263_N | 1.188 | 0.54 |
| 64_V | 105_L | 1.183 | 0.53 |
| 41_N | 156_K | 1.172 | 0.52 |
| 18_F | 56_L | 1.170 | 0.52 |
| 61_N | 94_V | 1.170 | 0.52 |
| 204_M | 271_I | 1.170 | 0.52 |
| 255_S | 259_K | 1.170 | 0.52 |
| 37_R | 248_A | 1.170 | 0.52 |
| 81_P | 85_L | 1.161 | 0.51 |
| 38_L | 45_T | 1.159 | 0.51 |
| 92_D | 102_Y | 1.154 | 0.51 |
| 24_L | 38_L | 1.146 | 0.50 |
| 75_K | 163_H | 1.140 | 0.49 |
| 79_V | 100_R | 1.138 | 0.49 |
| 64_V | 118_F | 1.136 | 0.49 |
| 12_F | 87_C | 1.132 | 0.49 |
| 153_S | 276_W | 1.132 | 0.49 |
| 39_I | 210_T | 1.127 | 0.48 |
| 27_D | 32_A | 1.127 | 0.48 |
| 134_P | 157_I | 1.118 | 0.47 |
| 54_D | 79_V | 1.118 | 0.47 |
| 27_D | 37_R | 1.117 | 0.47 |
| 140_W | 156_K | 1.114 | 0.47 |
| 28_A | 210_T | 1.110 | 0.47 |
| 129_S | 235_D | 1.108 | 0.46 |
| 39_I | 163_H | 1.107 | 0.46 |
| 134_P | 244_P | 1.105 | 0.46 |
| 30_S | 43_L | 1.102 | 0.46 |
| 54_D | 132_Y | 1.098 | 0.45 |
| 214_A | 231_Q | 1.098 | 0.45 |
| 191_I | 256_Y | 1.092 | 0.45 |
| 45_T | 106_D | 1.092 | 0.45 |
| 116_K | 157_I | 1.090 | 0.45 |
| 205_F | 221_I | 1.086 | 0.44 |
| 129_S | 268_I | 1.084 | 0.44 |
| 130_I | 198_D | 1.083 | 0.44 |
| 211_E | 248_A | 1.081 | 0.44 |
| 210_T | 219_D | 1.079 | 0.44 |
| 170_F | 173_Y | 1.078 | 0.44 |
| 30_S | 259_K | 1.078 | 0.44 |
| 186_A | 194_E | 1.077 | 0.43 |
| 266_S | 279_L | 1.075 | 0.43 |
| 37_R | 266_S | 1.074 | 0.43 |
| 154_I | 161_T | 1.073 | 0.43 |
| 57_T | 66_Y | 1.070 | 0.43 |
| 58_C | 62_D | 1.069 | 0.43 |
| 143_H | 275_L | 1.067 | 0.42 |
| 32_A | 69_K | 1.067 | 0.42 |
| 202_S | 206_Q | 1.066 | 0.42 |
| 38_L | 64_V | 1.063 | 0.42 |
| 108_L | 249_N | 1.061 | 0.42 |
| 73_N | 113_D | 1.055 | 0.41 |
| 199_E | 271_I | 1.049 | 0.41 |
| 77_I | 196_Q | 1.049 | 0.41 |
| 101_V | 196_Q | 1.047 | 0.41 |
| 210_T | 214_A | 1.045 | 0.40 |
| 46_L | 232_N | 1.044 | 0.40 |
| 39_I | 268_I | 1.043 | 0.40 |
| 42_F | 151_N | 1.040 | 0.40 |
| 64_V | 189_R | 1.038 | 0.40 |
| 47_L | 85_L | 1.037 | 0.40 |
| 227_F | 254_I | 1.037 | 0.40 |
| 33_C | 229_T | 1.037 | 0.40 |
| 81_P | 154_I | 1.036 | 0.40 |
| 132_Y | 219_D | 1.035 | 0.40 |
| 178_N | 273_N | 1.033 | 0.39 |
| 27_D | 268_I | 1.032 | 0.39 |
| 2_G | 211_E | 1.030 | 0.39 |
| 32_A | 213_I | 1.030 | 0.39 |
| 22_A | 82_D | 1.030 | 0.39 |
| 117_Q | 259_K | 1.027 | 0.39 |
| 109_R | 116_K | 1.019 | 0.38 |
| 96_L | 155_P | 1.013 | 0.38 |
| 37_R | 41_N | 1.011 | 0.37 |
| 135_A | 140_W | 1.011 | 0.37 |
| 105_L | 161_T | 1.007 | 0.37 |
| 248_A | 266_S | 1.007 | 0.37 |
| 87_C | 213_I | 1.006 | 0.37 |
| 95_T | 216_K | 1.006 | 0.37 |
| 234_L | 254_I | 1.005 | 0.37 |
| 134_P | 160_Q | 1.004 | 0.37 |
| 212_E | 248_A | 1.004 | 0.37 |
| 19_V | 47_L | 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
- 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 | |
| 1e6iA | 1 | 0.3488 | 100 | 0.778 | Contact Map |
| 3rcwA | 8 | 0.3559 | 100 | 0.782 | Contact Map |
| 3d7cA | 2 | 0.3594 | 100 | 0.785 | Contact Map |
| 4nqnA | 1 | 0.3523 | 100 | 0.785 | Contact Map |
| 4qnsA | 4 | 0.3594 | 100 | 0.787 | Contact Map |
| 4bhwA | 2 | 0.3665 | 100 | 0.787 | Contact Map |
| 4nyxA | 1 | 0.3665 | 100 | 0.787 | Contact Map |
| 4ldfA | 2 | 0.3559 | 100 | 0.788 | Contact Map |
| 4n4fA | 1 | 0.3701 | 100 | 0.789 | Contact Map |
| 2i7kA | 1 | 0.3665 | 100 | 0.789 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)