| 1E9GB |
| ID: | 1411761682 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 283 (282) | ||
| Sequences: | 337 (191.6) | ||
| Seq/Len: | 1.195 | ||
| Nf(neff/√len): | 11.4 |
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: 1.195).
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 |
| 34_L | 96_F | 2.794 | 1.00 |
| 32_I | 134_V | 2.250 | 0.99 |
| 110_T | 151_T | 2.232 | 0.99 |
| 16_K | 63_E | 2.203 | 0.99 |
| 247_L | 250_T | 2.160 | 0.98 |
| 170_D | 211_N | 2.092 | 0.98 |
| 83_C | 191_I | 2.081 | 0.98 |
| 145_L | 207_G | 1.966 | 0.96 |
| 6_Q | 15_Y | 1.884 | 0.95 |
| 139_A | 219_I | 1.862 | 0.95 |
| 205_F | 210_K | 1.813 | 0.94 |
| 212_K | 219_I | 1.803 | 0.93 |
| 29_F | 122_L | 1.708 | 0.91 |
| 81_R | 196_D | 1.661 | 0.89 |
| 142_I | 215_A | 1.619 | 0.87 |
| 49_I | 281_F | 1.575 | 0.85 |
| 96_F | 121_V | 1.566 | 0.85 |
| 12_T | 270_A | 1.560 | 0.85 |
| 34_L | 123_E | 1.552 | 0.84 |
| 11_N | 79_F | 1.546 | 0.84 |
| 121_V | 157_A | 1.539 | 0.83 |
| 142_I | 145_L | 1.517 | 0.82 |
| 5_R | 20_E | 1.513 | 0.82 |
| 59_I | 95_A | 1.510 | 0.82 |
| 55_A | 79_F | 1.497 | 0.81 |
| 11_N | 77_L | 1.482 | 0.80 |
| 244_N | 250_T | 1.470 | 0.79 |
| 44_N | 136_Q | 1.458 | 0.79 |
| 139_A | 148_E | 1.443 | 0.78 |
| 129_A | 135_K | 1.430 | 0.77 |
| 168_L | 178_F | 1.429 | 0.77 |
| 135_K | 159_D | 1.428 | 0.77 |
| 98_Q | 149_G | 1.428 | 0.77 |
| 80_V | 89_Y | 1.422 | 0.76 |
| 63_E | 69_I | 1.420 | 0.76 |
| 129_A | 133_Q | 1.402 | 0.75 |
| 34_L | 63_E | 1.397 | 0.74 |
| 171_I | 174_V | 1.375 | 0.73 |
| 28_A | 32_I | 1.351 | 0.71 |
| 61_K | 222_T | 1.348 | 0.71 |
| 242_L | 252_T | 1.331 | 0.69 |
| 82_N | 88_G | 1.323 | 0.68 |
| 84_F | 184_A | 1.321 | 0.68 |
| 49_I | 134_V | 1.308 | 0.67 |
| 127_T | 133_Q | 1.306 | 0.67 |
| 96_F | 119_I | 1.272 | 0.64 |
| 45_M | 137_V | 1.265 | 0.63 |
| 51_R | 95_A | 1.265 | 0.63 |
| 107_H | 214_Y | 1.247 | 0.62 |
| 54_N | 88_G | 1.233 | 0.60 |
| 52_W | 88_G | 1.229 | 0.60 |
| 244_N | 251_P | 1.225 | 0.60 |
| 47_V | 135_K | 1.222 | 0.59 |
| 45_M | 95_A | 1.212 | 0.58 |
| 125_G | 179_P | 1.203 | 0.58 |
| 19_I | 28_A | 1.203 | 0.58 |
| 74_K | 148_E | 1.199 | 0.57 |
| 191_I | 194_I | 1.195 | 0.57 |
| 37_D | 41_N | 1.192 | 0.57 |
| 204_A | 210_K | 1.190 | 0.56 |
| 51_R | 89_Y | 1.181 | 0.56 |
| 183_R | 187_E | 1.179 | 0.55 |
| 218_I | 242_L | 1.173 | 0.55 |
| 88_G | 185_T | 1.168 | 0.54 |
| 28_A | 91_H | 1.167 | 0.54 |
| 123_E | 219_I | 1.162 | 0.54 |
| 271_P | 280_F | 1.157 | 0.53 |
| 78_R | 101_E | 1.145 | 0.52 |
| 171_I | 281_F | 1.143 | 0.52 |
| 76_K | 230_I | 1.140 | 0.52 |
| 42_I | 160_I | 1.140 | 0.52 |
| 155_V | 218_I | 1.136 | 0.51 |
| 247_L | 263_P | 1.135 | 0.51 |
| 16_K | 69_I | 1.132 | 0.51 |
| 79_F | 142_I | 1.131 | 0.51 |
| 52_W | 89_Y | 1.129 | 0.50 |
| 254_S | 257_A | 1.126 | 0.50 |
| 206_S | 213_K | 1.126 | 0.50 |
| 108_P | 170_D | 1.121 | 0.50 |
| 42_I | 151_T | 1.119 | 0.50 |
| 43_F | 216_L | 1.113 | 0.49 |
| 83_C | 246_T | 1.105 | 0.48 |
| 105_V | 225_S | 1.097 | 0.47 |
| 110_T | 215_A | 1.095 | 0.47 |
| 51_R | 80_V | 1.095 | 0.47 |
| 174_V | 195_P | 1.090 | 0.47 |
| 116_N | 222_T | 1.089 | 0.47 |
| 20_E | 211_N | 1.088 | 0.47 |
| 73_K | 76_K | 1.084 | 0.46 |
| 178_F | 225_S | 1.083 | 0.46 |
| 121_V | 243_T | 1.081 | 0.46 |
| 195_P | 203_F | 1.080 | 0.46 |
| 80_V | 85_P | 1.077 | 0.45 |
| 259_D | 263_P | 1.077 | 0.45 |
| 43_F | 96_F | 1.072 | 0.45 |
| 187_E | 191_I | 1.071 | 0.45 |
| 101_E | 117_D | 1.068 | 0.45 |
| 239_G | 267_K | 1.065 | 0.44 |
| 98_Q | 223_H | 1.062 | 0.44 |
| 115_D | 120_D | 1.062 | 0.44 |
| 87_H | 90_I | 1.060 | 0.44 |
| 271_P | 274_K | 1.059 | 0.44 |
| 140_L | 226_W | 1.059 | 0.44 |
| 29_F | 185_T | 1.057 | 0.44 |
| 248_P | 273_D | 1.057 | 0.44 |
| 183_R | 186_N | 1.057 | 0.44 |
| 26_V | 223_H | 1.057 | 0.44 |
| 247_L | 260_A | 1.053 | 0.43 |
| 178_F | 181_L | 1.051 | 0.43 |
| 129_A | 277_D | 1.051 | 0.43 |
| 45_M | 53_T | 1.047 | 0.43 |
| 122_L | 185_T | 1.045 | 0.42 |
| 12_T | 158_I | 1.044 | 0.42 |
| 19_I | 32_I | 1.042 | 0.42 |
| 90_I | 95_A | 1.041 | 0.42 |
| 196_D | 203_F | 1.041 | 0.42 |
| 244_N | 247_L | 1.039 | 0.42 |
| 80_V | 88_G | 1.038 | 0.42 |
| 84_F | 185_T | 1.035 | 0.41 |
| 270_A | 275_S | 1.033 | 0.41 |
| 86_H | 187_E | 1.033 | 0.41 |
| 241_D | 282_I | 1.033 | 0.41 |
| 101_E | 132_G | 1.030 | 0.41 |
| 272_I | 277_D | 1.028 | 0.41 |
| 25_P | 65_L | 1.028 | 0.41 |
| 100_W | 132_G | 1.027 | 0.41 |
| 52_W | 184_A | 1.027 | 0.41 |
| 247_L | 252_T | 1.025 | 0.40 |
| 113_V | 155_V | 1.025 | 0.40 |
| 246_T | 250_T | 1.019 | 0.40 |
| 232_G | 252_T | 1.019 | 0.40 |
| 238_K | 245_V | 1.015 | 0.40 |
| 29_F | 80_V | 1.012 | 0.39 |
| 54_N | 95_A | 1.009 | 0.39 |
| 194_I | 200_E | 1.009 | 0.39 |
| 90_I | 185_T | 1.007 | 0.39 |
| 263_P | 267_K | 1.003 | 0.38 |
| 130_Y | 133_Q | 1.002 | 0.38 |
| 112_A | 214_Y | 1.001 | 0.38 |
| 274_K | 277_D | 1.000 | 0.38 |
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 | |
| 1e9gA | 2 | 1 | 100 | 0.236 | Contact Map |
| 3q46A | 1 | 0.6254 | 100 | 0.554 | Contact Map |
| 2prdA | 1 | 0.6042 | 100 | 0.561 | Contact Map |
| 4lugA | 2 | 0.6219 | 100 | 0.566 | Contact Map |
| 3fq3A | 12 | 0.5972 | 100 | 0.575 | Contact Map |
| 3gvfA | 1 | 0.6007 | 100 | 0.58 | Contact Map |
| 2au7A | 1 | 0.6078 | 100 | 0.58 | Contact Map |
| 3ld3A | 2 | 0.5901 | 100 | 0.584 | Contact Map |
| 2bqxA | 1 | 0.576 | 100 | 0.592 | Contact Map |
| 3tr4A | 6 | 0.5901 | 100 | 0.592 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)