| zwint1 |
| ID: | 1495952236 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 377 (274) | ||
| Sequences: | 1186 (1066.1) | ||
| Seq/Len: | 4.328 | ||
| Nf(neff/√len): | 64.4 |
Jackhmmer Results: (2016_04)
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: 4.328).
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 |
| 150_Q | 153_E | 1.677 | 0.99 |
| 135_K | 138_C | 1.642 | 0.99 |
| 178_L | 181_L | 1.601 | 0.99 |
| 151_R | 155_Q | 1.492 | 0.98 |
| 289_Q | 293_L | 1.483 | 0.98 |
| 52_Q | 55_V | 1.474 | 0.98 |
| 279_L | 283_M | 1.449 | 0.97 |
| 43_R | 50_F | 1.442 | 0.97 |
| 113_R | 116_E | 1.418 | 0.97 |
| 37_P | 41_D | 1.405 | 0.97 |
| 236_K | 239_E | 1.363 | 0.96 |
| 294_S | 299_L | 1.358 | 0.96 |
| 50_F | 57_D | 1.357 | 0.96 |
| 171_M | 174_C | 1.350 | 0.95 |
| 134_K | 141_K | 1.347 | 0.95 |
| 285_K | 288_S | 1.342 | 0.95 |
| 60_I | 64_A | 1.341 | 0.95 |
| 292_M | 299_L | 1.339 | 0.95 |
| 283_M | 286_Y | 1.335 | 0.95 |
| 239_E | 243_V | 1.324 | 0.95 |
| 292_M | 295_E | 1.319 | 0.95 |
| 156_I | 160_L | 1.317 | 0.95 |
| 35_M | 40_M | 1.302 | 0.94 |
| 185_I | 189_Q | 1.301 | 0.94 |
| 54_F | 57_D | 1.289 | 0.94 |
| 185_I | 188_R | 1.289 | 0.94 |
| 290_G | 293_L | 1.286 | 0.94 |
| 86_R | 92_L | 1.285 | 0.94 |
| 192_I | 202_L | 1.285 | 0.94 |
| 258_L | 261_T | 1.270 | 0.93 |
| 289_Q | 296_I | 1.270 | 0.93 |
| 63_L | 70_D | 1.262 | 0.93 |
| 64_A | 67_E | 1.259 | 0.93 |
| 270_G | 274_Q | 1.253 | 0.92 |
| 96_Y | 99_K | 1.244 | 0.92 |
| 260_G | 263_L | 1.240 | 0.92 |
| 289_Q | 295_E | 1.238 | 0.92 |
| 293_L | 297_Q | 1.230 | 0.92 |
| 289_Q | 299_L | 1.226 | 0.91 |
| 242_R | 246_T | 1.221 | 0.91 |
| 72_L | 75_E | 1.212 | 0.91 |
| 178_L | 185_I | 1.206 | 0.90 |
| 135_K | 141_K | 1.203 | 0.90 |
| 25_E | 30_G | 1.203 | 0.90 |
| 128_L | 131_L | 1.202 | 0.90 |
| 241_L | 245_I | 1.196 | 0.90 |
| 92_L | 96_Y | 1.192 | 0.90 |
| 293_L | 298_S | 1.185 | 0.89 |
| 134_K | 137_E | 1.168 | 0.88 |
| 295_E | 298_S | 1.168 | 0.88 |
| 256_Q | 260_G | 1.167 | 0.88 |
| 238_L | 242_R | 1.165 | 0.88 |
| 248_T | 251_D | 1.161 | 0.88 |
| 286_Y | 290_G | 1.158 | 0.88 |
| 242_R | 249_T | 1.158 | 0.88 |
| 30_G | 33_E | 1.157 | 0.88 |
| 285_K | 292_M | 1.148 | 0.87 |
| 295_E | 299_L | 1.146 | 0.87 |
| 265_E | 269_N | 1.145 | 0.87 |
| 238_L | 245_I | 1.145 | 0.87 |
| 201_G | 205_L | 1.145 | 0.87 |
| 276_S | 280_E | 1.144 | 0.87 |
| 277_V | 280_E | 1.144 | 0.87 |
| 264_V | 267_A | 1.143 | 0.87 |
| 184_E | 195_W | 1.143 | 0.87 |
| 294_S | 297_Q | 1.138 | 0.87 |
| 96_Y | 100_V | 1.138 | 0.87 |
| 199_R | 202_L | 1.137 | 0.87 |
| 246_T | 250_K | 1.136 | 0.87 |
| 34_I | 38_Y | 1.132 | 0.86 |
| 159_Q | 165_Q | 1.129 | 0.86 |
| 198_L | 201_G | 1.125 | 0.86 |
| 159_Q | 163_S | 1.123 | 0.86 |
| 188_R | 191_R | 1.122 | 0.86 |
| 255_L | 259_Q | 1.121 | 0.86 |
| 244_T | 248_T | 1.120 | 0.86 |
| 296_I | 299_L | 1.119 | 0.85 |
| 287_I | 293_L | 1.119 | 0.85 |
| 60_I | 67_E | 1.118 | 0.85 |
| 246_T | 254_H | 1.117 | 0.85 |
| 218_L | 221_S | 1.116 | 0.85 |
| 263_L | 267_A | 1.115 | 0.85 |
| 58_D | 61_Q | 1.112 | 0.85 |
| 157_S | 160_L | 1.111 | 0.85 |
| 280_E | 283_M | 1.108 | 0.85 |
| 222_P | 225_L | 1.105 | 0.84 |
| 36_V | 51_R | 1.102 | 0.84 |
| 246_T | 249_T | 1.101 | 0.84 |
| 36_V | 39_L | 1.101 | 0.84 |
| 131_L | 134_K | 1.099 | 0.84 |
| 48_Q | 58_D | 1.099 | 0.84 |
| 290_G | 294_S | 1.097 | 0.84 |
| 51_R | 57_D | 1.095 | 0.84 |
| 101_E | 105_G | 1.095 | 0.84 |
| 48_Q | 52_Q | 1.092 | 0.83 |
| 250_K | 254_H | 1.092 | 0.83 |
| 36_V | 40_M | 1.091 | 0.83 |
| 271_P | 282_V | 1.088 | 0.83 |
| 214_Q | 218_L | 1.088 | 0.83 |
| 61_Q | 65_G | 1.085 | 0.83 |
| 92_L | 134_K | 1.085 | 0.83 |
| 57_D | 61_Q | 1.084 | 0.83 |
| 179_S | 182_K | 1.073 | 0.82 |
| 100_V | 124_L | 1.072 | 0.82 |
| 277_V | 284_E | 1.068 | 0.82 |
| 99_K | 127_L | 1.067 | 0.82 |
| 289_Q | 292_M | 1.065 | 0.81 |
| 131_L | 135_K | 1.064 | 0.81 |
| 240_P | 245_I | 1.063 | 0.81 |
| 198_L | 202_L | 1.061 | 0.81 |
| 240_P | 248_T | 1.061 | 0.81 |
| 92_L | 99_K | 1.061 | 0.81 |
| 293_L | 299_L | 1.061 | 0.81 |
| 196_T | 200_D | 1.061 | 0.81 |
| 28_E | 31_E | 1.060 | 0.81 |
| 249_T | 254_H | 1.057 | 0.81 |
| 263_L | 276_S | 1.054 | 0.80 |
| 100_V | 103_M | 1.054 | 0.80 |
| 244_T | 247_M | 1.053 | 0.80 |
| 128_L | 136_E | 1.050 | 0.80 |
| 289_Q | 294_S | 1.049 | 0.80 |
| 235_E | 238_L | 1.048 | 0.80 |
| 180_K | 184_E | 1.048 | 0.80 |
| 243_V | 247_M | 1.046 | 0.80 |
| 260_G | 267_A | 1.046 | 0.80 |
| 281_E | 285_K | 1.041 | 0.79 |
| 246_T | 255_L | 1.040 | 0.79 |
| 273_R | 277_V | 1.039 | 0.79 |
| 196_T | 203_Q | 1.038 | 0.79 |
| 32_G | 37_P | 1.035 | 0.79 |
| 28_E | 34_I | 1.033 | 0.79 |
| 270_G | 273_R | 1.031 | 0.78 |
| 58_D | 64_A | 1.029 | 0.78 |
| 221_S | 229_I | 1.029 | 0.78 |
| 274_Q | 286_Y | 1.028 | 0.78 |
| 240_P | 246_T | 1.028 | 0.78 |
| 40_M | 50_F | 1.028 | 0.78 |
| 84_G | 88_A | 1.028 | 0.78 |
| 25_E | 28_E | 1.027 | 0.78 |
| 290_G | 297_Q | 1.027 | 0.78 |
| 95_E | 162_D | 1.026 | 0.78 |
| 158_F | 168_Q | 1.023 | 0.78 |
| 127_L | 134_K | 1.023 | 0.78 |
| 243_V | 248_T | 1.023 | 0.78 |
| 48_Q | 51_R | 1.020 | 0.77 |
| 262_G | 265_E | 1.020 | 0.77 |
| 38_Y | 42_C | 1.019 | 0.77 |
| 286_Y | 289_Q | 1.019 | 0.77 |
| 127_L | 141_K | 1.016 | 0.77 |
| 288_S | 293_L | 1.014 | 0.77 |
| 239_E | 248_T | 1.014 | 0.77 |
| 291_E | 296_I | 1.013 | 0.77 |
| 35_M | 38_Y | 1.013 | 0.77 |
| 208_M | 212_G | 1.010 | 0.76 |
| 282_V | 293_L | 1.007 | 0.76 |
| 29_T | 50_F | 1.005 | 0.76 |
| 290_G | 298_S | 1.004 | 0.76 |
| 242_R | 251_D | 1.003 | 0.76 |
| 91_T | 98_E | 1.003 | 0.76 |
| 166_A | 170_A | 1.001 | 0.75 |
| 52_Q | 57_D | 1.001 | 0.75 |
| 287_I | 290_G | 1.001 | 0.75 |
| 266_E | 270_G | 1.000 | 0.75 |
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 | |
| 1i84S | 2 | 0.1114 | 97.9 | 0.865 | Contact Map |
| 3vkgA | 2 | 0.7135 | 96.4 | 0.894 | Contact Map |
| 2dfsA | 2 | 0.4483 | 96.1 | 0.896 | Contact Map |
| 3na7A | 1 | 0.5782 | 95.6 | 0.901 | Contact Map |
| 4rsiA | 1 | 0.4456 | 95.2 | 0.903 | Contact Map |
| 1c1gA | 4 | 0.6127 | 94.9 | 0.905 | Contact Map |
| 4rsiB | 1 | 0.6048 | 94.2 | 0.908 | Contact Map |
| 3ojaB | 1 | 0.3581 | 93.2 | 0.912 | Contact Map |
| 3mq9A | 8 | 0.252 | 92.6 | 0.914 | Contact Map |
| 4linA | 12 | 0.6764 | 92.1 | 0.915 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)