| galectin 8 |
| ID: | 1501849120 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 317 (303) | ||
| Sequences: | 500 (350.4) | ||
| 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 |
| 243_S | 290_Y | 3.617 | 1.00 |
| 114_F | 135_I | 3.334 | 1.00 |
| 64_F | 116_V | 3.178 | 1.00 |
| 50_L | 107_I | 2.633 | 1.00 |
| 65_H | 69_R | 2.477 | 1.00 |
| 80_T | 126_Y | 2.365 | 1.00 |
| 228_L | 280_V | 2.309 | 1.00 |
| 48_V | 105_I | 2.234 | 0.99 |
| 78_C | 124_L | 2.230 | 0.99 |
| 11_I | 15_P | 2.165 | 0.99 |
| 229_H | 233_R | 2.147 | 0.99 |
| 12_I | 15_P | 2.145 | 0.99 |
| 33_I | 50_L | 2.098 | 0.99 |
| 49_D | 65_H | 2.034 | 0.99 |
| 23_I | 26_Q | 2.009 | 0.98 |
| 211_A | 263_P | 1.890 | 0.97 |
| 76_I | 123_T | 1.840 | 0.97 |
| 117_A | 122_H | 1.772 | 0.96 |
| 23_I | 33_I | 1.763 | 0.96 |
| 65_H | 77_V | 1.717 | 0.95 |
| 233_R | 252_E | 1.717 | 0.95 |
| 45_R | 71_K | 1.689 | 0.94 |
| 242_N | 249_W | 1.672 | 0.94 |
| 185_L | 309_I | 1.650 | 0.93 |
| 63_A | 67_N | 1.647 | 0.93 |
| 233_R | 242_N | 1.610 | 0.92 |
| 205_G | 267_F | 1.567 | 0.91 |
| 253_E | 260_P | 1.492 | 0.88 |
| 236_I | 254_R | 1.486 | 0.87 |
| 213_S | 235_N | 1.484 | 0.87 |
| 229_H | 242_N | 1.481 | 0.87 |
| 50_L | 64_F | 1.470 | 0.87 |
| 69_R | 91_I | 1.456 | 0.86 |
| 233_R | 254_R | 1.455 | 0.86 |
| 241_R | 253_E | 1.429 | 0.84 |
| 241_R | 259_F | 1.422 | 0.84 |
| 63_A | 68_P | 1.421 | 0.84 |
| 201_V | 218_L | 1.409 | 0.83 |
| 281_A | 289_E | 1.392 | 0.82 |
| 64_F | 78_C | 1.377 | 0.81 |
| 72_R | 91_I | 1.365 | 0.80 |
| 217_D | 304_E | 1.362 | 0.80 |
| 86_W | 103_F | 1.354 | 0.80 |
| 108_M | 117_A | 1.351 | 0.80 |
| 278_F | 300_I | 1.342 | 0.79 |
| 69_R | 77_V | 1.326 | 0.78 |
| 65_H | 229_H | 1.319 | 0.77 |
| 214_F | 232_P | 1.317 | 0.77 |
| 227_A | 278_F | 1.307 | 0.76 |
| 46_F | 61_D | 1.300 | 0.76 |
| 218_L | 271_I | 1.300 | 0.76 |
| 261_F | 282_V | 1.297 | 0.76 |
| 30_G | 37_G | 1.289 | 0.75 |
| 286_H | 289_E | 1.281 | 0.74 |
| 259_F | 281_A | 1.277 | 0.74 |
| 272_Y | 281_A | 1.276 | 0.74 |
| 67_N | 77_V | 1.274 | 0.74 |
| 311_L | 314_V | 1.265 | 0.73 |
| 18_P | 30_G | 1.259 | 0.72 |
| 229_H | 232_P | 1.257 | 0.72 |
| 87_G | 103_F | 1.251 | 0.72 |
| 271_I | 278_F | 1.247 | 0.71 |
| 267_F | 283_N | 1.244 | 0.71 |
| 140_I | 146_I | 1.236 | 0.70 |
| 230_L | 287_S | 1.227 | 0.70 |
| 144_V | 212_K | 1.224 | 0.69 |
| 259_F | 268_E | 1.223 | 0.69 |
| 77_V | 254_R | 1.219 | 0.69 |
| 79_N | 86_W | 1.217 | 0.69 |
| 217_D | 229_H | 1.215 | 0.69 |
| 203_V | 311_L | 1.211 | 0.68 |
| 107_I | 203_V | 1.211 | 0.68 |
| 119_N | 314_V | 1.204 | 0.68 |
| 64_F | 97_F | 1.191 | 0.66 |
| 78_C | 95_T | 1.189 | 0.66 |
| 233_R | 250_G | 1.188 | 0.66 |
| 205_G | 249_W | 1.186 | 0.66 |
| 89_E | 103_F | 1.165 | 0.64 |
| 18_P | 37_G | 1.162 | 0.64 |
| 146_I | 300_I | 1.161 | 0.63 |
| 90_E | 252_E | 1.151 | 0.62 |
| 278_F | 292_H | 1.151 | 0.62 |
| 17_I | 23_I | 1.147 | 0.62 |
| 77_V | 252_E | 1.146 | 0.62 |
| 207_V | 287_S | 1.137 | 0.61 |
| 14_N | 148_S | 1.135 | 0.61 |
| 35_I | 192_N | 1.134 | 0.61 |
| 105_I | 118_V | 1.124 | 0.60 |
| 27_L | 33_I | 1.123 | 0.60 |
| 109_V | 132_P | 1.122 | 0.60 |
| 97_F | 242_N | 1.122 | 0.60 |
| 212_K | 305_I | 1.121 | 0.59 |
| 250_G | 293_R | 1.120 | 0.59 |
| 114_F | 271_I | 1.117 | 0.59 |
| 213_S | 233_R | 1.115 | 0.59 |
| 88_R | 305_I | 1.112 | 0.59 |
| 113_K | 125_L | 1.111 | 0.58 |
| 242_N | 250_G | 1.108 | 0.58 |
| 233_R | 240_V | 1.107 | 0.58 |
| 31_T | 234_L | 1.105 | 0.58 |
| 239_F | 287_S | 1.104 | 0.58 |
| 195_M | 273_C | 1.103 | 0.58 |
| 67_N | 79_N | 1.101 | 0.57 |
| 201_V | 316_S | 1.100 | 0.57 |
| 65_H | 252_E | 1.090 | 0.56 |
| 12_I | 19_Y | 1.088 | 0.56 |
| 149_I | 301_D | 1.087 | 0.56 |
| 242_N | 252_E | 1.083 | 0.55 |
| 229_H | 252_E | 1.082 | 0.55 |
| 18_P | 23_I | 1.078 | 0.55 |
| 48_V | 107_I | 1.075 | 0.55 |
| 217_D | 264_G | 1.074 | 0.55 |
| 80_T | 240_V | 1.072 | 0.54 |
| 229_H | 293_R | 1.069 | 0.54 |
| 53_G | 60_A | 1.069 | 0.54 |
| 70_F | 99_R | 1.066 | 0.54 |
| 172_R | 179_G | 1.063 | 0.53 |
| 303_L | 308_D | 1.062 | 0.53 |
| 91_I | 254_R | 1.061 | 0.53 |
| 46_F | 214_F | 1.060 | 0.53 |
| 273_C | 292_H | 1.059 | 0.53 |
| 207_V | 309_I | 1.051 | 0.52 |
| 226_I | 233_R | 1.050 | 0.52 |
| 158_Q | 162_A | 1.047 | 0.52 |
| 118_V | 123_T | 1.045 | 0.51 |
| 226_I | 231_N | 1.045 | 0.51 |
| 87_G | 126_Y | 1.042 | 0.51 |
| 203_V | 314_V | 1.033 | 0.50 |
| 32_L | 106_V | 1.028 | 0.50 |
| 11_I | 16_V | 1.028 | 0.50 |
| 231_N | 242_N | 1.025 | 0.49 |
| 180_T | 183_L | 1.025 | 0.49 |
| 215_N | 232_P | 1.021 | 0.49 |
| 64_F | 131_G | 1.019 | 0.49 |
| 95_T | 118_V | 1.018 | 0.49 |
| 23_I | 34_V | 1.017 | 0.49 |
| 70_F | 284_G | 1.014 | 0.48 |
| 50_L | 252_E | 1.014 | 0.48 |
| 194_P | 285_V | 1.010 | 0.48 |
| 305_I | 308_D | 1.004 | 0.47 |
| 23_I | 151_F | 1.002 | 0.47 |
| 66_F | 278_F | 1.002 | 0.47 |
| 220_A | 299_S | 1.001 | 0.47 |
| 71_K | 75_C | 1.001 | 0.47 |
| 35_I | 107_I | 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 | 0.9117 | 100 | 0.129 | Contact Map |
| 3wv6A | 2 | 0 | 100 | 0.155 | Contact Map |
| 4hl0A | 2 | 0.8738 | 100 | 0.178 | Contact Map |
| 2wsuA | 4 | 0.9117 | 100 | 0.189 | Contact Map |
| 3ap9A | 1 | 0.4763 | 100 | 0.541 | Contact Map |
| 2d6mA | 2 | 0.4763 | 100 | 0.549 | Contact Map |
| 2zhnA | 1 | 0.4543 | 100 | 0.561 | Contact Map |
| 3i8tA | 1 | 0.4416 | 100 | 0.569 | Contact Map |
| 4xbqA | 2 | 0 | 100 | 0.571 | Contact Map |
| 2yroA | 1 | 0.47 | 100 | 0.575 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)