| Q9C8H3 |
| ID: | 1485956168 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 296 (296) | ||
| Sequences: | 414 (204.6) | ||
| Seq/Len: | 1.399 | ||
| Nf(neff/√len): | 11.9 |
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: 1.399).
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 |
| 127_H | 270_H | 2.099 | 0.98 |
| 97_I | 100_V | 1.978 | 0.97 |
| 130_F | 260_A | 1.916 | 0.97 |
| 93_N | 96_R | 1.892 | 0.96 |
| 271_P | 274_R | 1.855 | 0.96 |
| 10_I | 102_S | 1.820 | 0.95 |
| 219_A | 223_E | 1.770 | 0.94 |
| 22_L | 57_I | 1.653 | 0.91 |
| 71_K | 75_E | 1.528 | 0.86 |
| 200_R | 219_A | 1.512 | 0.85 |
| 121_I | 128_I | 1.501 | 0.85 |
| 23_N | 53_Q | 1.460 | 0.83 |
| 4_V | 211_I | 1.451 | 0.82 |
| 88_R | 203_R | 1.449 | 0.82 |
| 48_D | 124_V | 1.419 | 0.80 |
| 4_V | 85_W | 1.419 | 0.80 |
| 182_D | 197_V | 1.417 | 0.80 |
| 43_T | 46_Q | 1.408 | 0.79 |
| 78_L | 268_L | 1.403 | 0.79 |
| 2_S | 60_T | 1.390 | 0.78 |
| 146_L | 182_D | 1.369 | 0.77 |
| 127_H | 265_L | 1.365 | 0.76 |
| 143_T | 147_Y | 1.364 | 0.76 |
| 167_D | 204_L | 1.363 | 0.76 |
| 176_A | 211_I | 1.356 | 0.76 |
| 131_I | 138_E | 1.324 | 0.73 |
| 20_S | 85_W | 1.321 | 0.73 |
| 285_F | 288_L | 1.319 | 0.73 |
| 21_L | 58_V | 1.311 | 0.72 |
| 70_R | 251_L | 1.311 | 0.72 |
| 29_S | 48_D | 1.310 | 0.72 |
| 22_L | 26_Y | 1.301 | 0.71 |
| 32_L | 173_A | 1.288 | 0.70 |
| 78_L | 84_M | 1.283 | 0.70 |
| 23_N | 229_L | 1.272 | 0.69 |
| 269_R | 273_L | 1.267 | 0.68 |
| 97_I | 268_L | 1.262 | 0.68 |
| 55_T | 58_V | 1.261 | 0.68 |
| 56_Q | 257_Q | 1.261 | 0.68 |
| 28_Y | 31_P | 1.258 | 0.68 |
| 225_F | 247_A | 1.258 | 0.68 |
| 32_L | 46_Q | 1.253 | 0.67 |
| 133_L | 137_P | 1.252 | 0.67 |
| 100_V | 222_G | 1.252 | 0.67 |
| 270_H | 274_R | 1.245 | 0.66 |
| 257_Q | 265_L | 1.241 | 0.66 |
| 252_Y | 273_L | 1.239 | 0.66 |
| 130_F | 253_I | 1.236 | 0.66 |
| 19_S | 42_L | 1.235 | 0.65 |
| 265_L | 270_H | 1.229 | 0.65 |
| 7_M | 46_Q | 1.228 | 0.65 |
| 133_L | 174_D | 1.227 | 0.65 |
| 200_R | 216_G | 1.218 | 0.64 |
| 55_T | 75_E | 1.216 | 0.64 |
| 269_R | 274_R | 1.216 | 0.64 |
| 65_A | 256_F | 1.209 | 0.63 |
| 21_L | 82_S | 1.206 | 0.63 |
| 156_Y | 234_P | 1.204 | 0.63 |
| 88_R | 201_Y | 1.202 | 0.62 |
| 105_I | 109_K | 1.201 | 0.62 |
| 122_T | 127_H | 1.198 | 0.62 |
| 256_F | 261_F | 1.197 | 0.62 |
| 136_Y | 268_L | 1.194 | 0.62 |
| 97_I | 215_V | 1.181 | 0.60 |
| 153_V | 295_M | 1.181 | 0.60 |
| 150_L | 153_V | 1.179 | 0.60 |
| 131_I | 261_F | 1.176 | 0.60 |
| 23_N | 294_C | 1.173 | 0.60 |
| 192_R | 198_R | 1.172 | 0.59 |
| 200_R | 223_E | 1.172 | 0.59 |
| 57_I | 280_V | 1.172 | 0.59 |
| 105_I | 144_I | 1.168 | 0.59 |
| 55_T | 59_S | 1.161 | 0.58 |
| 47_L | 207_I | 1.160 | 0.58 |
| 114_I | 126_I | 1.159 | 0.58 |
| 102_S | 190_T | 1.156 | 0.58 |
| 21_L | 30_M | 1.152 | 0.57 |
| 20_S | 57_I | 1.146 | 0.57 |
| 201_Y | 205_R | 1.142 | 0.56 |
| 129_L | 132_I | 1.141 | 0.56 |
| 78_L | 167_D | 1.141 | 0.56 |
| 107_V | 242_L | 1.139 | 0.56 |
| 21_L | 49_N | 1.137 | 0.56 |
| 49_N | 55_T | 1.137 | 0.56 |
| 62_L | 68_P | 1.134 | 0.56 |
| 34_P | 41_P | 1.134 | 0.56 |
| 52_H | 259_V | 1.133 | 0.56 |
| 37_H | 41_P | 1.133 | 0.56 |
| 257_Q | 262_A | 1.132 | 0.55 |
| 1_P | 60_T | 1.131 | 0.55 |
| 126_I | 135_I | 1.130 | 0.55 |
| 4_V | 20_S | 1.128 | 0.55 |
| 197_V | 200_R | 1.127 | 0.55 |
| 60_T | 277_L | 1.122 | 0.54 |
| 101_L | 144_I | 1.122 | 0.54 |
| 101_L | 112_E | 1.120 | 0.54 |
| 43_T | 53_Q | 1.116 | 0.54 |
| 34_P | 38_Y | 1.115 | 0.54 |
| 14_V | 167_D | 1.112 | 0.53 |
| 24_M | 76_Y | 1.110 | 0.53 |
| 167_D | 170_L | 1.107 | 0.53 |
| 39_L | 63_T | 1.107 | 0.53 |
| 187_T | 191_S | 1.106 | 0.53 |
| 97_I | 261_F | 1.104 | 0.53 |
| 56_Q | 82_S | 1.091 | 0.51 |
| 197_V | 265_L | 1.090 | 0.51 |
| 97_I | 292_T | 1.089 | 0.51 |
| 256_F | 262_A | 1.084 | 0.51 |
| 58_V | 131_I | 1.082 | 0.50 |
| 291_R | 294_C | 1.079 | 0.50 |
| 214_V | 222_G | 1.078 | 0.50 |
| 42_L | 63_T | 1.078 | 0.50 |
| 46_Q | 49_N | 1.076 | 0.50 |
| 19_S | 225_F | 1.075 | 0.50 |
| 15_R | 197_V | 1.073 | 0.50 |
| 23_N | 141_L | 1.070 | 0.49 |
| 88_R | 204_L | 1.065 | 0.49 |
| 248_A | 254_T | 1.062 | 0.48 |
| 181_L | 185_F | 1.062 | 0.48 |
| 75_E | 84_M | 1.059 | 0.48 |
| 130_F | 138_E | 1.059 | 0.48 |
| 151_I | 239_L | 1.058 | 0.48 |
| 141_L | 256_F | 1.058 | 0.48 |
| 16_F | 189_P | 1.057 | 0.48 |
| 26_Y | 42_L | 1.056 | 0.48 |
| 284_F | 287_R | 1.056 | 0.48 |
| 174_D | 241_V | 1.056 | 0.48 |
| 123_T | 239_L | 1.051 | 0.47 |
| 45_S | 52_H | 1.051 | 0.47 |
| 270_H | 278_P | 1.051 | 0.47 |
| 20_S | 225_F | 1.051 | 0.47 |
| 118_K | 127_H | 1.050 | 0.47 |
| 105_I | 148_L | 1.049 | 0.47 |
| 216_G | 219_A | 1.049 | 0.47 |
| 203_R | 208_A | 1.045 | 0.47 |
| 9_E | 15_R | 1.041 | 0.46 |
| 77_M | 93_N | 1.039 | 0.46 |
| 250_I | 259_V | 1.035 | 0.46 |
| 106_A | 111_F | 1.034 | 0.46 |
| 222_G | 250_I | 1.034 | 0.46 |
| 236_A | 278_P | 1.034 | 0.46 |
| 4_V | 295_M | 1.034 | 0.46 |
| 14_V | 108_G | 1.032 | 0.45 |
| 4_V | 26_Y | 1.030 | 0.45 |
| 123_T | 127_H | 1.030 | 0.45 |
| 9_E | 89_R | 1.029 | 0.45 |
| 201_Y | 208_A | 1.027 | 0.45 |
| 89_R | 114_I | 1.027 | 0.45 |
| 42_L | 46_Q | 1.025 | 0.45 |
| 22_L | 63_T | 1.024 | 0.45 |
| 53_Q | 294_C | 1.020 | 0.44 |
| 104_I | 136_Y | 1.019 | 0.44 |
| 113_Q | 118_K | 1.019 | 0.44 |
| 87_M | 91_K | 1.016 | 0.44 |
| 112_E | 116_V | 1.016 | 0.44 |
| 6_K | 37_H | 1.015 | 0.44 |
| 96_R | 219_A | 1.014 | 0.44 |
| 242_L | 262_A | 1.012 | 0.43 |
| 17_T | 85_W | 1.012 | 0.43 |
| 55_T | 60_T | 1.012 | 0.43 |
| 11_H | 227_S | 1.011 | 0.43 |
| 201_Y | 204_L | 1.011 | 0.43 |
| 50_L | 54_A | 1.006 | 0.43 |
| 232_R | 235_R | 1.004 | 0.43 |
| 214_V | 221_Q | 1.002 | 0.42 |
| 221_Q | 286_R | 1.001 | 0.42 |
| 39_L | 44_V | 1.001 | 0.42 |
| 231_W | 235_R | 1.000 | 0.42 |
| 90_S | 231_W | 1.000 | 0.42 |
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 | |
| 3hd7A | 2 | 0.2973 | 14.8 | 0.975 | Contact Map |
| 2xzeQ | 2 | 0.0777 | 13.9 | 0.976 | Contact Map |
| 2kogA | 1 | 0.3818 | 12.2 | 0.976 | Contact Map |
| 2kncA | 1 | 0.1757 | 7.1 | 0.979 | Contact Map |
| 2dvkA | 1 | 0.2297 | 7.1 | 0.979 | Contact Map |
| 1ko6B | 2 | 0.0203 | 7 | 0.979 | Contact Map |
| 4r0cA | 4 | 0 | 6.7 | 0.979 | Contact Map |
| 1q2fA | 1 | 0.1081 | 5.3 | 0.98 | Contact Map |
| 3te3A | 6 | 0.1318 | 5 | 0.98 | Contact Map |
| 1lypA | 1 | 0.0811 | 4.8 | 0.98 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)