| ERG1_Iso3 130-410 |
| ID: | 1495471546 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 281 (279) | ||
| Sequences: | 355 (221.2) | ||
| Seq/Len: | 1.272 | ||
| Nf(neff/√len): | 13.2 |
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: 1.272).
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 |
| 259_V | 267_K | 1.878 | 0.96 |
| 193_Q | 197_E | 1.781 | 0.94 |
| 246_A | 267_K | 1.776 | 0.93 |
| 274_A | 279_P | 1.708 | 0.92 |
| 249_Y | 261_G | 1.680 | 0.91 |
| 236_P | 239_N | 1.644 | 0.89 |
| 190_Q | 196_L | 1.634 | 0.89 |
| 225_V | 236_P | 1.627 | 0.89 |
| 189_I | 193_Q | 1.597 | 0.88 |
| 246_A | 259_V | 1.584 | 0.87 |
| 239_N | 263_R | 1.519 | 0.84 |
| 241_D | 256_M | 1.484 | 0.82 |
| 221_D | 224_E | 1.458 | 0.80 |
| 235_K | 247_L | 1.452 | 0.80 |
| 191_L | 194_F | 1.452 | 0.80 |
| 254_N | 264_Y | 1.452 | 0.80 |
| 218_K | 236_P | 1.450 | 0.80 |
| 216_E | 222_P | 1.434 | 0.79 |
| 274_A | 277_L | 1.427 | 0.78 |
| 245_R | 250_Y | 1.414 | 0.77 |
| 255_I | 264_Y | 1.400 | 0.76 |
| 223_D | 227_R | 1.367 | 0.74 |
| 196_L | 219_M | 1.366 | 0.74 |
| 46_L | 54_F | 1.350 | 0.72 |
| 211_E | 246_A | 1.344 | 0.72 |
| 208_I | 225_V | 1.343 | 0.72 |
| 245_R | 248_R | 1.332 | 0.71 |
| 273_I | 280_H | 1.328 | 0.71 |
| 263_R | 266_Y | 1.320 | 0.70 |
| 261_G | 267_K | 1.320 | 0.70 |
| 198_L | 232_R | 1.318 | 0.70 |
| 226_A | 242_K | 1.309 | 0.69 |
| 277_L | 280_H | 1.308 | 0.69 |
| 246_A | 249_Y | 1.306 | 0.69 |
| 212_G | 216_E | 1.297 | 0.68 |
| 242_K | 251_Y | 1.292 | 0.68 |
| 224_E | 228_R | 1.279 | 0.67 |
| 215_G | 246_A | 1.279 | 0.67 |
| 235_K | 258_K | 1.278 | 0.66 |
| 232_R | 236_P | 1.278 | 0.66 |
| 235_K | 252_D | 1.271 | 0.66 |
| 189_I | 197_E | 1.271 | 0.66 |
| 249_Y | 252_D | 1.268 | 0.66 |
| 212_G | 222_P | 1.267 | 0.65 |
| 188_Q | 215_G | 1.261 | 0.65 |
| 195_L | 236_P | 1.253 | 0.64 |
| 196_L | 222_P | 1.247 | 0.64 |
| 242_K | 248_R | 1.247 | 0.64 |
| 253_K | 264_Y | 1.246 | 0.64 |
| 28_Y | 219_M | 1.246 | 0.64 |
| 215_G | 267_K | 1.242 | 0.63 |
| 195_L | 239_N | 1.242 | 0.63 |
| 247_L | 261_G | 1.241 | 0.63 |
| 237_N | 246_A | 1.240 | 0.63 |
| 190_Q | 252_D | 1.240 | 0.63 |
| 52_D | 70_L | 1.236 | 0.63 |
| 221_D | 227_R | 1.227 | 0.62 |
| 271_H | 277_L | 1.226 | 0.62 |
| 216_E | 264_Y | 1.218 | 0.61 |
| 196_L | 216_E | 1.216 | 0.61 |
| 190_Q | 216_E | 1.213 | 0.61 |
| 171_Y | 181_L | 1.210 | 0.60 |
| 190_Q | 197_E | 1.210 | 0.60 |
| 248_R | 251_Y | 1.201 | 0.59 |
| 194_F | 197_E | 1.200 | 0.59 |
| 189_I | 232_R | 1.199 | 0.59 |
| 190_Q | 222_P | 1.196 | 0.59 |
| 219_M | 247_L | 1.194 | 0.59 |
| 271_H | 276_A | 1.189 | 0.58 |
| 204_N | 211_E | 1.187 | 0.58 |
| 252_D | 264_Y | 1.185 | 0.58 |
| 232_R | 239_N | 1.180 | 0.57 |
| 9_P | 17_V | 1.180 | 0.57 |
| 242_K | 245_R | 1.179 | 0.57 |
| 12_W | 20_W | 1.177 | 0.57 |
| 243_L | 248_R | 1.174 | 0.57 |
| 226_A | 244_S | 1.172 | 0.57 |
| 211_E | 215_G | 1.170 | 0.56 |
| 209_T | 219_M | 1.167 | 0.56 |
| 49_M | 63_A | 1.167 | 0.56 |
| 235_K | 249_Y | 1.163 | 0.56 |
| 189_I | 195_L | 1.161 | 0.55 |
| 38_F | 58_T | 1.155 | 0.55 |
| 243_L | 250_Y | 1.155 | 0.55 |
| 17_V | 20_W | 1.153 | 0.55 |
| 190_Q | 193_Q | 1.152 | 0.55 |
| 210_W | 217_F | 1.152 | 0.55 |
| 190_Q | 212_G | 1.147 | 0.54 |
| 84_D | 87_D | 1.145 | 0.54 |
| 238_M | 248_R | 1.142 | 0.54 |
| 198_L | 208_I | 1.140 | 0.53 |
| 208_I | 236_P | 1.136 | 0.53 |
| 189_I | 198_L | 1.134 | 0.53 |
| 245_R | 251_Y | 1.132 | 0.53 |
| 229_W | 238_M | 1.131 | 0.53 |
| 238_M | 242_K | 1.131 | 0.53 |
| 222_P | 264_Y | 1.127 | 0.52 |
| 230_G | 238_M | 1.125 | 0.52 |
| 219_M | 235_K | 1.124 | 0.52 |
| 226_A | 245_R | 1.119 | 0.51 |
| 9_P | 12_W | 1.118 | 0.51 |
| 219_M | 222_P | 1.116 | 0.51 |
| 196_L | 261_G | 1.115 | 0.51 |
| 224_E | 237_N | 1.113 | 0.51 |
| 253_K | 258_K | 1.107 | 0.50 |
| 243_L | 266_Y | 1.103 | 0.50 |
| 189_I | 208_I | 1.100 | 0.49 |
| 38_F | 66_L | 1.088 | 0.48 |
| 227_R | 269_D | 1.087 | 0.48 |
| 226_A | 243_L | 1.087 | 0.48 |
| 196_L | 201_D | 1.086 | 0.48 |
| 200_S | 256_M | 1.085 | 0.48 |
| 252_D | 262_K | 1.083 | 0.48 |
| 238_M | 245_R | 1.081 | 0.48 |
| 235_K | 261_G | 1.074 | 0.47 |
| 226_A | 229_W | 1.068 | 0.46 |
| 235_K | 264_Y | 1.067 | 0.46 |
| 51_K | 68_S | 1.066 | 0.46 |
| 30_L | 70_L | 1.065 | 0.46 |
| 188_Q | 246_A | 1.065 | 0.46 |
| 249_Y | 263_R | 1.064 | 0.46 |
| 242_K | 250_Y | 1.064 | 0.46 |
| 257_T | 262_K | 1.062 | 0.46 |
| 233_K | 238_M | 1.061 | 0.46 |
| 192_W | 210_W | 1.059 | 0.45 |
| 263_R | 268_F | 1.059 | 0.45 |
| 216_E | 219_M | 1.053 | 0.45 |
| 262_K | 267_K | 1.052 | 0.45 |
| 232_R | 243_L | 1.052 | 0.45 |
| 222_P | 247_L | 1.052 | 0.45 |
| 188_Q | 193_Q | 1.051 | 0.45 |
| 225_V | 239_N | 1.046 | 0.44 |
| 12_W | 17_V | 1.044 | 0.44 |
| 187_G | 190_Q | 1.044 | 0.44 |
| 196_L | 235_K | 1.041 | 0.44 |
| 192_W | 199_L | 1.038 | 0.43 |
| 213_T | 231_E | 1.033 | 0.43 |
| 193_Q | 196_L | 1.032 | 0.43 |
| 188_Q | 196_L | 1.031 | 0.43 |
| 254_N | 261_G | 1.031 | 0.43 |
| 218_K | 239_N | 1.031 | 0.43 |
| 196_L | 247_L | 1.029 | 0.43 |
| 237_N | 257_T | 1.028 | 0.42 |
| 191_L | 197_E | 1.027 | 0.42 |
| 227_R | 253_K | 1.024 | 0.42 |
| 226_A | 230_G | 1.019 | 0.42 |
| 232_R | 265_A | 1.019 | 0.42 |
| 16_H | 49_M | 1.017 | 0.41 |
| 68_S | 72_Y | 1.013 | 0.41 |
| 27_E | 57_L | 1.013 | 0.41 |
| 30_L | 46_L | 1.012 | 0.41 |
| 223_D | 254_N | 1.011 | 0.41 |
| 211_E | 237_N | 1.010 | 0.41 |
| 24_A | 30_L | 1.005 | 0.40 |
| 265_A | 269_D | 1.005 | 0.40 |
| 226_A | 250_Y | 1.005 | 0.40 |
| 226_A | 238_M | 1.003 | 0.40 |
| 187_G | 196_L | 1.003 | 0.40 |
| 26_K | 61_Y | 1.003 | 0.40 |
| 197_E | 235_K | 1.001 | 0.40 |
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 | |
| 4irhA | 1 | 0.363 | 100 | 0.508 | Contact Map |
| 4irgA | 1 | 0.3488 | 100 | 0.529 | Contact Map |
| 3wtsC | 2 | 0.3843 | 100 | 0.588 | Contact Map |
| 1hbxG | 2 | 0.3274 | 100 | 0.591 | Contact Map |
| 1gvjA | 2 | 0.4698 | 100 | 0.594 | Contact Map |
| 4co8A | 1 | 0.3274 | 100 | 0.598 | Contact Map |
| 2lf8A | 1 | 0.3452 | 100 | 0.602 | Contact Map |
| 1yo5C | 1 | 0.3025 | 100 | 0.603 | Contact Map |
| 2daoA | 1 | 0.3452 | 100 | 0.603 | Contact Map |
| 1awcA | 1 | 0.331 | 100 | 0.607 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)