| galectin 8 |
| ID: | 1501849233 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 316 (303) | ||
| Sequences: | 500 (350.7) | ||
| Seq/Len: | 1.650 | ||
| Nf(neff/√len): | 20.1 |
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: 1.650).
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 |
| 242_S | 289_Y | 3.659 | 1.00 |
| 113_F | 134_I | 3.443 | 1.00 |
| 63_F | 115_V | 3.165 | 1.00 |
| 49_L | 106_I | 2.508 | 1.00 |
| 64_H | 68_R | 2.448 | 1.00 |
| 79_T | 125_Y | 2.370 | 1.00 |
| 77_C | 123_L | 2.237 | 0.99 |
| 47_V | 104_I | 2.233 | 0.99 |
| 10_I | 14_P | 2.146 | 0.99 |
| 11_I | 14_P | 2.134 | 0.99 |
| 227_L | 279_V | 2.110 | 0.99 |
| 228_H | 232_R | 2.100 | 0.99 |
| 22_I | 25_Q | 2.056 | 0.99 |
| 32_I | 49_L | 2.019 | 0.99 |
| 48_D | 64_H | 1.942 | 0.98 |
| 210_A | 262_P | 1.874 | 0.97 |
| 116_A | 121_H | 1.865 | 0.97 |
| 75_I | 122_T | 1.854 | 0.97 |
| 64_H | 76_V | 1.786 | 0.96 |
| 62_A | 66_N | 1.747 | 0.95 |
| 232_R | 251_E | 1.728 | 0.95 |
| 44_R | 70_K | 1.709 | 0.95 |
| 22_I | 32_I | 1.687 | 0.94 |
| 241_N | 248_W | 1.659 | 0.93 |
| 184_L | 308_I | 1.632 | 0.93 |
| 232_R | 241_N | 1.586 | 0.91 |
| 228_H | 241_N | 1.552 | 0.90 |
| 204_G | 266_F | 1.543 | 0.90 |
| 212_S | 234_N | 1.530 | 0.89 |
| 240_R | 252_E | 1.485 | 0.87 |
| 62_A | 67_P | 1.479 | 0.87 |
| 240_R | 258_F | 1.474 | 0.87 |
| 200_V | 217_L | 1.452 | 0.86 |
| 235_I | 253_R | 1.443 | 0.85 |
| 252_E | 259_P | 1.439 | 0.85 |
| 68_R | 90_I | 1.432 | 0.85 |
| 63_F | 77_C | 1.405 | 0.83 |
| 107_M | 116_A | 1.401 | 0.83 |
| 232_R | 253_R | 1.394 | 0.82 |
| 64_H | 228_H | 1.393 | 0.82 |
| 49_L | 63_F | 1.377 | 0.81 |
| 271_Y | 280_A | 1.371 | 0.81 |
| 216_D | 303_E | 1.354 | 0.80 |
| 29_G | 36_G | 1.352 | 0.80 |
| 71_R | 90_I | 1.352 | 0.80 |
| 145_I | 299_I | 1.344 | 0.79 |
| 213_F | 231_P | 1.343 | 0.79 |
| 217_L | 270_I | 1.340 | 0.79 |
| 78_N | 85_W | 1.337 | 0.79 |
| 280_A | 288_E | 1.328 | 0.78 |
| 310_L | 313_V | 1.314 | 0.77 |
| 139_I | 145_I | 1.302 | 0.76 |
| 226_A | 277_F | 1.299 | 0.76 |
| 45_F | 60_D | 1.293 | 0.75 |
| 285_H | 288_E | 1.293 | 0.75 |
| 68_R | 76_V | 1.267 | 0.73 |
| 258_F | 280_A | 1.255 | 0.72 |
| 63_F | 96_F | 1.253 | 0.72 |
| 216_D | 228_H | 1.249 | 0.72 |
| 266_F | 282_N | 1.246 | 0.71 |
| 258_F | 267_E | 1.244 | 0.71 |
| 277_F | 299_I | 1.225 | 0.69 |
| 270_I | 277_F | 1.225 | 0.69 |
| 89_E | 251_E | 1.222 | 0.69 |
| 228_H | 231_P | 1.218 | 0.69 |
| 229_L | 286_S | 1.216 | 0.69 |
| 85_W | 102_F | 1.216 | 0.69 |
| 66_N | 76_V | 1.212 | 0.68 |
| 77_C | 94_T | 1.211 | 0.68 |
| 260_F | 281_V | 1.206 | 0.68 |
| 232_R | 249_G | 1.203 | 0.67 |
| 206_V | 286_S | 1.200 | 0.67 |
| 118_N | 313_V | 1.192 | 0.66 |
| 148_I | 300_D | 1.192 | 0.66 |
| 76_V | 253_R | 1.181 | 0.65 |
| 17_P | 29_G | 1.179 | 0.65 |
| 202_V | 310_L | 1.167 | 0.64 |
| 69_F | 98_R | 1.165 | 0.64 |
| 86_G | 102_F | 1.163 | 0.64 |
| 106_I | 202_V | 1.159 | 0.63 |
| 104_I | 117_V | 1.158 | 0.63 |
| 204_G | 248_W | 1.147 | 0.62 |
| 52_G | 59_A | 1.137 | 0.61 |
| 11_I | 18_Y | 1.136 | 0.61 |
| 96_F | 241_N | 1.136 | 0.61 |
| 13_N | 147_S | 1.134 | 0.61 |
| 16_I | 22_I | 1.133 | 0.61 |
| 47_V | 106_I | 1.132 | 0.61 |
| 241_N | 251_E | 1.131 | 0.60 |
| 241_N | 249_G | 1.129 | 0.60 |
| 143_V | 211_K | 1.127 | 0.60 |
| 26_L | 32_I | 1.121 | 0.59 |
| 113_F | 270_I | 1.120 | 0.59 |
| 202_V | 313_V | 1.115 | 0.59 |
| 17_P | 36_G | 1.114 | 0.59 |
| 125_Y | 128_R | 1.113 | 0.59 |
| 200_V | 315_S | 1.113 | 0.59 |
| 232_R | 239_V | 1.112 | 0.59 |
| 216_D | 263_G | 1.112 | 0.59 |
| 17_P | 22_I | 1.110 | 0.58 |
| 277_F | 291_H | 1.109 | 0.58 |
| 179_T | 182_L | 1.109 | 0.58 |
| 212_S | 232_R | 1.100 | 0.57 |
| 302_L | 307_D | 1.100 | 0.57 |
| 66_N | 78_N | 1.093 | 0.57 |
| 30_T | 233_L | 1.087 | 0.56 |
| 249_G | 292_R | 1.083 | 0.55 |
| 211_K | 304_I | 1.081 | 0.55 |
| 194_M | 272_C | 1.078 | 0.55 |
| 76_V | 251_E | 1.076 | 0.55 |
| 45_F | 213_F | 1.074 | 0.55 |
| 34_I | 191_N | 1.069 | 0.54 |
| 90_I | 253_R | 1.068 | 0.54 |
| 85_W | 89_E | 1.066 | 0.54 |
| 76_V | 239_V | 1.057 | 0.53 |
| 157_Q | 161_A | 1.056 | 0.53 |
| 239_V | 253_R | 1.054 | 0.52 |
| 139_I | 143_V | 1.050 | 0.52 |
| 228_H | 251_E | 1.046 | 0.52 |
| 88_E | 102_F | 1.046 | 0.52 |
| 86_G | 125_Y | 1.045 | 0.51 |
| 64_H | 251_E | 1.044 | 0.51 |
| 171_R | 178_G | 1.043 | 0.51 |
| 31_L | 105_V | 1.038 | 0.51 |
| 65_F | 68_R | 1.038 | 0.51 |
| 225_I | 232_R | 1.038 | 0.51 |
| 112_K | 124_L | 1.037 | 0.51 |
| 229_L | 270_I | 1.029 | 0.50 |
| 238_F | 286_S | 1.027 | 0.50 |
| 63_F | 130_G | 1.027 | 0.50 |
| 87_R | 304_I | 1.026 | 0.49 |
| 225_I | 230_N | 1.017 | 0.49 |
| 89_E | 252_E | 1.016 | 0.48 |
| 69_F | 283_G | 1.011 | 0.48 |
| 214_N | 231_P | 1.009 | 0.48 |
| 65_F | 117_V | 1.006 | 0.47 |
| 46_Q | 122_T | 1.005 | 0.47 |
| 47_V | 139_I | 1.004 | 0.47 |
| 77_C | 122_T | 1.004 | 0.47 |
| 279_V | 287_L | 1.002 | 0.47 |
| 206_V | 308_I | 1.000 | 0.47 |
| 68_R | 78_N | 1.000 | 0.47 |
| 117_V | 122_T | 1.000 | 0.47 |
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 | |
| 3vklA | 2 | 0.9146 | 100 | 0.123 | Contact Map |
| 3wv6A | 2 | 0 | 100 | 0.141 | Contact Map |
| 4hl0A | 2 | 0.8766 | 100 | 0.169 | Contact Map |
| 2wsuA | 4 | 0.9146 | 100 | 0.175 | Contact Map |
| 2d6mA | 2 | 0.4747 | 100 | 0.538 | Contact Map |
| 3ap9A | 1 | 0.4778 | 100 | 0.538 | Contact Map |
| 2zhnA | 1 | 0.4557 | 100 | 0.552 | Contact Map |
| 3i8tA | 1 | 0.443 | 100 | 0.561 | Contact Map |
| 4xbqA | 2 | 0 | 100 | 0.564 | Contact Map |
| 4ym3A | 4 | 0 | 100 | 0.571 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)