| JULY30_eIF2B_human_alpha |
| ID: | 1501460665 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 305 (280) | ||
| Sequences: | 2916 (1716) | ||
| Seq/Len: | 10.414 | ||
| Nf(neff/√len): | 102.6 |
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: 10.414).
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 |
| 206_I | 281_I | 3.498 | 1.00 |
| 213_N | 222_Q | 3.436 | 1.00 |
| 221_A | 280_L | 2.775 | 1.00 |
| 128_H | 153_T | 2.728 | 1.00 |
| 123_A | 192_L | 2.617 | 1.00 |
| 71_L | 96_R | 2.603 | 1.00 |
| 139_E | 171_L | 2.594 | 1.00 |
| 216_A | 280_L | 2.590 | 1.00 |
| 221_A | 279_S | 2.482 | 1.00 |
| 179_L | 182_A | 2.482 | 1.00 |
| 194_I | 229_V | 2.431 | 1.00 |
| 111_I | 229_V | 2.388 | 1.00 |
| 53_I | 73_L | 2.370 | 1.00 |
| 152_V | 175_V | 2.361 | 1.00 |
| 184_G | 214_Q | 2.355 | 1.00 |
| 53_I | 69_G | 2.255 | 1.00 |
| 200_V | 230_A | 2.250 | 1.00 |
| 119_I | 192_L | 2.180 | 1.00 |
| 72_F | 93_M | 2.154 | 1.00 |
| 57_C | 66_S | 2.058 | 1.00 |
| 195_V | 226_F | 2.056 | 1.00 |
| 193_V | 219_A | 2.014 | 1.00 |
| 57_C | 70_E | 2.011 | 1.00 |
| 71_L | 103_R | 1.999 | 1.00 |
| 149_S | 176_T | 1.999 | 1.00 |
| 177_V | 263_G | 1.921 | 1.00 |
| 195_V | 212_T | 1.903 | 1.00 |
| 50_T | 73_L | 1.899 | 1.00 |
| 126_L | 153_T | 1.899 | 1.00 |
| 241_L | 245_D | 1.878 | 1.00 |
| 175_V | 266_L | 1.843 | 1.00 |
| 124_T | 191_D | 1.833 | 1.00 |
| 106_L | 110_K | 1.817 | 1.00 |
| 241_L | 244_Q | 1.797 | 1.00 |
| 137_V | 229_V | 1.788 | 1.00 |
| 177_V | 266_L | 1.762 | 1.00 |
| 116_H | 144_A | 1.748 | 1.00 |
| 123_A | 191_D | 1.727 | 1.00 |
| 225_P | 282_T | 1.719 | 1.00 |
| 49_L | 76_I | 1.717 | 1.00 |
| 149_S | 174_P | 1.668 | 1.00 |
| 207_I | 246_V | 1.657 | 1.00 |
| 124_T | 149_S | 1.642 | 1.00 |
| 126_L | 190_A | 1.630 | 1.00 |
| 124_T | 151_Y | 1.610 | 1.00 |
| 50_T | 77_S | 1.598 | 1.00 |
| 113_D | 140_A | 1.586 | 1.00 |
| 197_A | 200_V | 1.573 | 1.00 |
| 102_R | 106_L | 1.569 | 1.00 |
| 158_D | 162_K | 1.567 | 1.00 |
| 206_I | 228_V | 1.563 | 1.00 |
| 235_F | 291_L | 1.544 | 1.00 |
| 195_V | 228_V | 1.544 | 1.00 |
| 182_A | 271_P | 1.543 | 1.00 |
| 186_I | 269_E | 1.532 | 1.00 |
| 140_A | 144_A | 1.530 | 1.00 |
| 212_T | 276_T | 1.521 | 1.00 |
| 113_D | 117_T | 1.519 | 1.00 |
| 120_K | 123_A | 1.507 | 1.00 |
| 41_T | 44_G | 1.499 | 1.00 |
| 165_A | 177_V | 1.493 | 1.00 |
| 117_T | 144_A | 1.486 | 1.00 |
| 205_G | 278_P | 1.481 | 1.00 |
| 201_V | 239_F | 1.472 | 1.00 |
| 213_N | 277_A | 1.471 | 1.00 |
| 58_G | 66_S | 1.459 | 1.00 |
| 197_A | 230_A | 1.456 | 1.00 |
| 110_K | 113_D | 1.442 | 1.00 |
| 126_L | 215_M | 1.430 | 1.00 |
| 183_V | 214_Q | 1.428 | 1.00 |
| 261_Q | 265_D | 1.425 | 1.00 |
| 143_A | 171_L | 1.420 | 1.00 |
| 151_Y | 190_A | 1.407 | 0.99 |
| 109_N | 113_D | 1.380 | 0.99 |
| 217_V | 221_A | 1.380 | 0.99 |
| 48_N | 51_S | 1.350 | 0.99 |
| 232_S | 287_D | 1.349 | 0.99 |
| 178_V | 186_I | 1.346 | 0.99 |
| 119_I | 123_A | 1.339 | 0.99 |
| 123_A | 146_K | 1.337 | 0.99 |
| 124_T | 148_F | 1.320 | 0.99 |
| 292_T | 295_A | 1.317 | 0.99 |
| 188_E | 244_Q | 1.312 | 0.99 |
| 174_P | 267_K | 1.307 | 0.99 |
| 220_K | 223_N | 1.278 | 0.99 |
| 107_S | 232_S | 1.277 | 0.99 |
| 166_K | 170_H | 1.276 | 0.99 |
| 149_S | 175_V | 1.263 | 0.99 |
| 79_A | 92_I | 1.260 | 0.99 |
| 240_P | 245_D | 1.258 | 0.99 |
| 85_D | 88_K | 1.257 | 0.99 |
| 112_A | 140_A | 1.253 | 0.99 |
| 116_H | 146_K | 1.241 | 0.98 |
| 66_S | 70_E | 1.240 | 0.98 |
| 141_A | 148_F | 1.231 | 0.98 |
| 150_V | 168_L | 1.230 | 0.98 |
| 75_F | 96_R | 1.229 | 0.98 |
| 184_G | 217_V | 1.229 | 0.98 |
| 50_T | 54_E | 1.189 | 0.98 |
| 123_A | 141_A | 1.185 | 0.98 |
| 140_A | 143_A | 1.184 | 0.98 |
| 227_Y | 283_L | 1.177 | 0.98 |
| 158_D | 272_W | 1.166 | 0.97 |
| 130_Y | 140_A | 1.163 | 0.97 |
| 227_Y | 282_T | 1.163 | 0.97 |
| 109_N | 140_A | 1.162 | 0.97 |
| 95_E | 99_L | 1.155 | 0.97 |
| 96_R | 99_L | 1.152 | 0.97 |
| 67_S | 233_F | 1.150 | 0.97 |
| 291_L | 295_A | 1.147 | 0.97 |
| 239_F | 245_D | 1.143 | 0.97 |
| 45_L | 90_K | 1.142 | 0.97 |
| 44_G | 48_N | 1.129 | 0.97 |
| 94_I | 98_E | 1.128 | 0.97 |
| 69_G | 73_L | 1.128 | 0.97 |
| 115_C | 137_V | 1.125 | 0.97 |
| 184_G | 218_C | 1.124 | 0.97 |
| 122_G | 147_R | 1.122 | 0.97 |
| 187_M | 193_V | 1.117 | 0.96 |
| 91_K | 95_E | 1.115 | 0.96 |
| 141_A | 192_L | 1.113 | 0.96 |
| 136_R | 139_E | 1.112 | 0.96 |
| 186_I | 190_A | 1.112 | 0.96 |
| 109_N | 143_A | 1.095 | 0.96 |
| 291_L | 296_V | 1.090 | 0.96 |
| 183_V | 215_M | 1.086 | 0.96 |
| 199_G | 236_V | 1.084 | 0.96 |
| 66_S | 69_G | 1.081 | 0.95 |
| 57_C | 69_G | 1.079 | 0.95 |
| 187_M | 219_A | 1.073 | 0.95 |
| 187_M | 222_Q | 1.070 | 0.95 |
| 67_S | 71_L | 1.066 | 0.95 |
| 98_E | 101_L | 1.065 | 0.95 |
| 184_G | 213_N | 1.060 | 0.95 |
| 122_G | 148_F | 1.050 | 0.94 |
| 142_V | 147_R | 1.047 | 0.94 |
| 205_G | 275_Y | 1.040 | 0.94 |
| 121_D | 147_R | 1.039 | 0.94 |
| 227_Y | 285_F | 1.034 | 0.94 |
| 193_V | 215_M | 1.023 | 0.93 |
| 153_T | 215_M | 1.022 | 0.93 |
| 112_A | 136_R | 1.005 | 0.93 |
| 104_I | 108_R | 1.001 | 0.92 |
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 | |
| 3ecsA | 8 | 0.9738 | 100 | 0.149 | Contact Map |
| 3a11A | 6 | 0.9836 | 100 | 0.197 | Contact Map |
| 2yvkA | 4 | 0.9738 | 100 | 0.252 | Contact Map |
| 1t5oA | 4 | 0.9672 | 100 | 0.253 | Contact Map |
| 4ldrA | 2 | 0.9869 | 100 | 0.256 | Contact Map |
| 1t9kA | 4 | 0.9639 | 100 | 0.269 | Contact Map |
| 2a0uA | 2 | 0.9902 | 100 | 0.273 | Contact Map |
| 1vb5A | 2 | 0.8885 | 100 | 0.369 | Contact Map |
| 1w2wB | 4 | 0.5246 | 100 | 0.472 | Contact Map |
| 1w2wA | 4 | 0.4787 | 99.4 | 0.812 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)