| EB Split |
| ID: | 1500916285 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 234 (232) | ||
| Sequences: | 446 (389.9) | ||
| Seq/Len: | 1.922 | ||
| Nf(neff/√len): | 25.6 |
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: 1.922).
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 |
| 16_V | 34_S | 1.985 | 0.99 |
| 35_R | 56_E | 1.880 | 0.98 |
| 75_L | 80_L | 1.876 | 0.98 |
| 68_L | 80_L | 1.825 | 0.98 |
| 216_G | 222_S | 1.822 | 0.98 |
| 59_V | 64_V | 1.811 | 0.97 |
| 68_L | 75_L | 1.757 | 0.97 |
| 199_W | 209_D | 1.733 | 0.96 |
| 196_A | 199_W | 1.718 | 0.96 |
| 67_D | 80_L | 1.683 | 0.96 |
| 45_R | 48_E | 1.609 | 0.94 |
| 89_M | 92_R | 1.577 | 0.93 |
| 219_P | 222_S | 1.551 | 0.92 |
| 154_A | 157_C | 1.535 | 0.92 |
| 197_H | 209_D | 1.526 | 0.91 |
| 197_H | 200_V | 1.518 | 0.91 |
| 194_L | 199_W | 1.517 | 0.91 |
| 187_V | 198_A | 1.515 | 0.91 |
| 61_R | 65_E | 1.513 | 0.91 |
| 60_D | 63_T | 1.508 | 0.91 |
| 187_V | 197_H | 1.445 | 0.88 |
| 64_V | 68_L | 1.423 | 0.87 |
| 217_I | 222_S | 1.389 | 0.85 |
| 188_W | 197_H | 1.384 | 0.85 |
| 63_T | 67_D | 1.347 | 0.83 |
| 110_D | 113_L | 1.333 | 0.82 |
| 161_A | 170_L | 1.325 | 0.81 |
| 120_P | 128_E | 1.308 | 0.80 |
| 187_V | 199_W | 1.300 | 0.80 |
| 201_E | 208_N | 1.295 | 0.79 |
| 189_K | 198_A | 1.289 | 0.79 |
| 51_D | 61_R | 1.288 | 0.79 |
| 92_R | 97_Q | 1.273 | 0.78 |
| 75_L | 79_E | 1.271 | 0.78 |
| 113_L | 116_E | 1.264 | 0.77 |
| 110_D | 114_S | 1.262 | 0.77 |
| 217_I | 220_M | 1.254 | 0.76 |
| 10_A | 17_V | 1.249 | 0.76 |
| 99_I | 114_S | 1.241 | 0.75 |
| 194_L | 197_H | 1.230 | 0.74 |
| 54_C | 73_R | 1.229 | 0.74 |
| 117_G | 120_P | 1.229 | 0.74 |
| 163_C | 186_G | 1.228 | 0.74 |
| 185_F | 197_H | 1.228 | 0.74 |
| 17_V | 26_Y | 1.223 | 0.74 |
| 20_H | 79_E | 1.223 | 0.74 |
| 57_Y | 64_V | 1.221 | 0.74 |
| 199_W | 207_V | 1.220 | 0.73 |
| 197_H | 201_E | 1.213 | 0.73 |
| 106_L | 110_D | 1.213 | 0.73 |
| 187_V | 190_A | 1.200 | 0.72 |
| 188_W | 198_A | 1.197 | 0.71 |
| 161_A | 165_H | 1.192 | 0.71 |
| 216_G | 219_P | 1.191 | 0.71 |
| 206_P | 211_R | 1.185 | 0.70 |
| 163_C | 199_W | 1.178 | 0.70 |
| 51_D | 55_A | 1.172 | 0.69 |
| 170_L | 208_N | 1.170 | 0.69 |
| 53_I | 68_L | 1.167 | 0.69 |
| 189_K | 197_H | 1.163 | 0.68 |
| 20_H | 30_D | 1.161 | 0.68 |
| 186_G | 198_A | 1.158 | 0.68 |
| 10_A | 24_G | 1.158 | 0.68 |
| 9_S | 16_V | 1.156 | 0.68 |
| 215_Q | 218_S | 1.154 | 0.67 |
| 187_V | 196_A | 1.149 | 0.67 |
| 163_C | 198_A | 1.145 | 0.67 |
| 26_Y | 30_D | 1.144 | 0.66 |
| 139_H | 142_L | 1.140 | 0.66 |
| 67_D | 71_F | 1.133 | 0.65 |
| 154_A | 158_P | 1.133 | 0.65 |
| 133_Q | 138_E | 1.131 | 0.65 |
| 71_F | 75_L | 1.130 | 0.65 |
| 195_R | 198_A | 1.129 | 0.65 |
| 189_K | 199_W | 1.124 | 0.64 |
| 163_C | 167_S | 1.121 | 0.64 |
| 67_D | 75_L | 1.121 | 0.64 |
| 53_I | 56_E | 1.118 | 0.64 |
| 198_A | 207_V | 1.116 | 0.64 |
| 19_L | 29_L | 1.113 | 0.63 |
| 183_L | 186_G | 1.111 | 0.63 |
| 186_G | 196_A | 1.109 | 0.63 |
| 26_Y | 36_I | 1.105 | 0.62 |
| 168_L | 171_H | 1.105 | 0.62 |
| 26_Y | 29_L | 1.104 | 0.62 |
| 188_W | 199_W | 1.102 | 0.62 |
| 184_R | 197_H | 1.101 | 0.62 |
| 23_T | 27_F | 1.100 | 0.62 |
| 158_P | 170_L | 1.099 | 0.62 |
| 103_W | 119_D | 1.099 | 0.62 |
| 12_I | 15_E | 1.097 | 0.62 |
| 192_E | 197_H | 1.096 | 0.62 |
| 17_V | 24_G | 1.096 | 0.62 |
| 201_E | 204_G | 1.095 | 0.61 |
| 114_S | 118_L | 1.092 | 0.61 |
| 118_L | 121_I | 1.088 | 0.61 |
| 200_V | 209_D | 1.086 | 0.60 |
| 96_L | 104_S | 1.085 | 0.60 |
| 188_W | 196_A | 1.082 | 0.60 |
| 71_F | 80_L | 1.076 | 0.59 |
| 184_R | 189_K | 1.073 | 0.59 |
| 76_A | 80_L | 1.058 | 0.57 |
| 40_L | 72_L | 1.056 | 0.57 |
| 218_S | 222_S | 1.056 | 0.57 |
| 44_K | 49_I | 1.055 | 0.57 |
| 114_S | 117_G | 1.053 | 0.57 |
| 67_D | 79_E | 1.052 | 0.57 |
| 24_G | 53_I | 1.051 | 0.57 |
| 15_E | 33_G | 1.049 | 0.57 |
| 187_V | 195_R | 1.049 | 0.57 |
| 28_G | 34_S | 1.047 | 0.56 |
| 189_K | 195_R | 1.045 | 0.56 |
| 167_S | 209_D | 1.043 | 0.56 |
| 194_L | 198_A | 1.043 | 0.56 |
| 186_G | 197_H | 1.039 | 0.55 |
| 197_H | 207_V | 1.038 | 0.55 |
| 23_T | 47_E | 1.035 | 0.55 |
| 73_R | 77_N | 1.035 | 0.55 |
| 215_Q | 219_P | 1.032 | 0.55 |
| 215_Q | 222_S | 1.031 | 0.55 |
| 64_V | 75_L | 1.030 | 0.54 |
| 185_F | 189_K | 1.025 | 0.54 |
| 69_R | 73_R | 1.024 | 0.54 |
| 105_D | 112_R | 1.022 | 0.54 |
| 7_V | 20_H | 1.021 | 0.53 |
| 7_V | 18_L | 1.018 | 0.53 |
| 226_V | 230_A | 1.017 | 0.53 |
| 207_V | 210_D | 1.017 | 0.53 |
| 11_H | 16_V | 1.015 | 0.53 |
| 113_L | 121_I | 1.012 | 0.52 |
| 198_A | 209_D | 1.012 | 0.52 |
| 200_V | 207_V | 1.011 | 0.52 |
| 184_R | 198_A | 1.010 | 0.52 |
| 184_R | 188_W | 1.010 | 0.52 |
| 199_W | 206_P | 1.010 | 0.52 |
| 110_D | 117_G | 1.007 | 0.52 |
| 24_G | 29_L | 1.007 | 0.52 |
| 163_C | 166_R | 1.004 | 0.52 |
| 226_V | 229_E | 1.004 | 0.52 |
| 92_R | 95_D | 1.003 | 0.51 |
| 36_I | 49_I | 1.002 | 0.51 |
| 163_C | 197_H | 1.000 | 0.51 |
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 | |
| 3g2bA | 1 | 0.3462 | 99.2 | 0.621 | Contact Map |
| 3deeA | 1 | 0.3504 | 9 | 0.926 | Contact Map |
| 2mvoA | 1 | 0 | 7.6 | 0.928 | Contact Map |
| 3io5A | 2 | 0.2521 | 6.2 | 0.931 | Contact Map |
| 1oyiA | 1 | 0.265 | 6.2 | 0.931 | Contact Map |
| 2dk5A | 1 | 0.3846 | 6 | 0.932 | Contact Map |
| 4ou0A | 1 | 0.2692 | 5.6 | 0.933 | Contact Map |
| 1d0qA | 2 | 0.2863 | 4.9 | 0.935 | Contact Map |
| 2yu3A | 1 | 0.3803 | 4.9 | 0.935 | Contact Map |
| 4trbA | 2 | 0.3376 | 4.4 | 0.936 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)