| 1EBLA |
| ID: | 1411761905 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 316 (315) | ||
| Sequences: | 8329 (5168.8) | ||
| Seq/Len: | 26.441 | ||
| Nf(neff/√len): | 291.2 |
HHblits Results: (2013_03)
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: 26.441).
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 |
| 297_L | 315_R | 3.464 | 1.00 |
| 61_A | 164_V | 3.313 | 1.00 |
| 58_A | 134_L | 3.274 | 1.00 |
| 54_G | 93_I | 3.169 | 1.00 |
| 55_F | 96_M | 3.083 | 1.00 |
| 132_Y | 166_A | 3.054 | 1.00 |
| 93_I | 136_V | 2.923 | 1.00 |
| 74_L | 133_A | 2.687 | 1.00 |
| 5_I | 166_A | 2.574 | 1.00 |
| 121_A | 133_A | 2.401 | 1.00 |
| 55_F | 93_I | 2.396 | 1.00 |
| 233_D | 236_Q | 2.300 | 1.00 |
| 9_S | 284_D | 2.269 | 1.00 |
| 40_E | 270_R | 2.202 | 1.00 |
| 33_V | 39_R | 2.122 | 1.00 |
| 284_D | 288_R | 2.120 | 1.00 |
| 117_A | 135_V | 2.112 | 1.00 |
| 238_D | 296_Q | 2.078 | 1.00 |
| 10_Y | 53_M | 2.040 | 1.00 |
| 52_T | 96_M | 2.014 | 1.00 |
| 161_G | 280_P | 2.013 | 1.00 |
| 17_T | 20_D | 2.009 | 1.00 |
| 68_E | 71_Q | 2.004 | 1.00 |
| 39_R | 269_D | 1.992 | 1.00 |
| 2_T | 122_D | 1.987 | 1.00 |
| 118_L | 165_L | 1.979 | 1.00 |
| 94_Q | 104_A | 1.971 | 1.00 |
| 7_T | 284_D | 1.948 | 1.00 |
| 157_G | 274_T | 1.934 | 1.00 |
| 167_A | 170_E | 1.919 | 1.00 |
| 122_D | 126_K | 1.901 | 1.00 |
| 260_S | 263_N | 1.884 | 1.00 |
| 274_T | 281_C | 1.770 | 1.00 |
| 6_G | 64_M | 1.766 | 1.00 |
| 56_E | 59_T | 1.762 | 1.00 |
| 20_D | 23_K | 1.760 | 1.00 |
| 73_G | 132_Y | 1.736 | 1.00 |
| 61_A | 65_A | 1.734 | 1.00 |
| 232_N | 236_Q | 1.711 | 1.00 |
| 59_T | 63_E | 1.710 | 1.00 |
| 177_H | 226_T | 1.696 | 1.00 |
| 57_A | 160_A | 1.687 | 1.00 |
| 57_A | 162_A | 1.684 | 1.00 |
| 220_A | 224_D | 1.681 | 1.00 |
| 25_V | 153_I | 1.666 | 1.00 |
| 58_A | 97_L | 1.607 | 1.00 |
| 76_V | 124_Y | 1.588 | 1.00 |
| 19_A | 22_E | 1.581 | 1.00 |
| 78_A | 117_A | 1.576 | 1.00 |
| 232_N | 297_L | 1.563 | 1.00 |
| 15_V | 40_E | 1.554 | 1.00 |
| 50_V | 138_S | 1.554 | 1.00 |
| 175_S | 230_N | 1.551 | 1.00 |
| 125_V | 165_L | 1.551 | 1.00 |
| 125_V | 167_A | 1.547 | 1.00 |
| 224_D | 228_A | 1.545 | 1.00 |
| 77_V | 136_V | 1.544 | 1.00 |
| 138_S | 160_A | 1.528 | 1.00 |
| 8_G | 61_A | 1.523 | 1.00 |
| 123_Q | 127_S | 1.514 | 1.00 |
| 222_I | 226_T | 1.504 | 1.00 |
| 118_L | 283_L | 1.483 | 1.00 |
| 175_S | 226_T | 1.472 | 1.00 |
| 226_T | 313_L | 1.468 | 1.00 |
| 105_F | 120_V | 1.465 | 1.00 |
| 67_I | 132_Y | 1.464 | 1.00 |
| 226_T | 230_N | 1.464 | 1.00 |
| 76_V | 105_F | 1.453 | 1.00 |
| 11_L | 271_H | 1.452 | 1.00 |
| 107_V | 120_V | 1.449 | 1.00 |
| 230_N | 313_L | 1.438 | 1.00 |
| 74_L | 124_Y | 1.437 | 1.00 |
| 15_V | 42_H | 1.430 | 1.00 |
| 300_L | 314_V | 1.425 | 1.00 |
| 55_F | 59_T | 1.424 | 1.00 |
| 71_Q | 132_Y | 1.413 | 1.00 |
| 226_T | 311_S | 1.408 | 1.00 |
| 64_M | 287_V | 1.406 | 0.99 |
| 114_F | 280_P | 1.405 | 0.99 |
| 254_A | 261_M | 1.405 | 0.99 |
| 90_A | 106_D | 1.396 | 0.99 |
| 67_I | 164_V | 1.390 | 0.99 |
| 121_A | 135_V | 1.389 | 0.99 |
| 177_H | 222_I | 1.389 | 0.99 |
| 176_T | 312_A | 1.385 | 0.99 |
| 207_A | 210_E | 1.379 | 0.99 |
| 76_V | 121_A | 1.358 | 0.99 |
| 17_T | 40_E | 1.356 | 0.99 |
| 16_R | 43_I | 1.351 | 0.99 |
| 79_T | 89_A | 1.341 | 0.99 |
| 62_I | 69_K | 1.335 | 0.99 |
| 125_V | 128_G | 1.331 | 0.99 |
| 60_R | 64_M | 1.331 | 0.99 |
| 130_V | 133_A | 1.330 | 0.99 |
| 247_L | 251_S | 1.323 | 0.99 |
| 270_R | 285_E | 1.317 | 0.99 |
| 293_K | 296_Q | 1.312 | 0.99 |
| 238_D | 297_L | 1.310 | 0.99 |
| 174_I | 315_R | 1.307 | 0.99 |
| 54_G | 77_V | 1.307 | 0.99 |
| 73_G | 131_K | 1.306 | 0.99 |
| 49_T | 52_T | 1.302 | 0.99 |
| 124_Y | 130_V | 1.300 | 0.99 |
| 159_G | 274_T | 1.287 | 0.99 |
| 221_H | 225_E | 1.279 | 0.99 |
| 119_S | 176_T | 1.271 | 0.99 |
| 112_A | 308_T | 1.270 | 0.99 |
| 227_L | 234_R | 1.270 | 0.99 |
| 131_K | 167_A | 1.262 | 0.99 |
| 175_S | 229_A | 1.260 | 0.99 |
| 51_S | 83_T | 1.249 | 0.99 |
| 67_I | 71_Q | 1.248 | 0.99 |
| 227_L | 232_N | 1.243 | 0.98 |
| 156_F | 275_S | 1.240 | 0.98 |
| 76_V | 133_A | 1.239 | 0.98 |
| 51_S | 89_A | 1.228 | 0.98 |
| 60_R | 63_E | 1.226 | 0.98 |
| 45_A | 48_E | 1.225 | 0.98 |
| 58_A | 136_V | 1.219 | 0.98 |
| 116_Y | 310_G | 1.202 | 0.98 |
| 43_I | 147_P | 1.196 | 0.98 |
| 99_I | 102_C | 1.192 | 0.98 |
| 110_A | 305_G | 1.187 | 0.98 |
| 30_E | 34_T | 1.180 | 0.98 |
| 227_L | 237_L | 1.173 | 0.98 |
| 62_I | 164_V | 1.172 | 0.98 |
| 111_C | 243_H | 1.170 | 0.97 |
| 134_L | 164_V | 1.168 | 0.97 |
| 267_T | 285_E | 1.168 | 0.97 |
| 118_L | 135_V | 1.161 | 0.97 |
| 120_V | 123_Q | 1.160 | 0.97 |
| 8_G | 60_R | 1.159 | 0.97 |
| 61_A | 162_A | 1.150 | 0.97 |
| 286_A | 298_V | 1.146 | 0.97 |
| 119_S | 123_Q | 1.144 | 0.97 |
| 123_Q | 126_K | 1.144 | 0.97 |
| 123_Q | 129_A | 1.141 | 0.97 |
| 91_C | 104_A | 1.140 | 0.97 |
| 109_A | 112_A | 1.134 | 0.97 |
| 73_G | 98_G | 1.129 | 0.97 |
| 177_H | 225_E | 1.121 | 0.97 |
| 6_G | 164_V | 1.118 | 0.96 |
| 163_A | 283_L | 1.114 | 0.96 |
| 3_K | 168_S | 1.114 | 0.96 |
| 64_M | 174_I | 1.112 | 0.96 |
| 54_G | 136_V | 1.111 | 0.96 |
| 125_V | 133_A | 1.103 | 0.96 |
| 136_V | 162_A | 1.102 | 0.96 |
| 177_H | 229_A | 1.098 | 0.96 |
| 13_E | 48_E | 1.097 | 0.96 |
| 225_E | 229_A | 1.093 | 0.96 |
| 166_A | 171_P | 1.092 | 0.96 |
| 121_A | 165_L | 1.087 | 0.96 |
| 54_G | 138_S | 1.083 | 0.96 |
| 222_I | 311_S | 1.083 | 0.96 |
| 251_S | 261_M | 1.083 | 0.96 |
| 58_A | 61_A | 1.082 | 0.96 |
| 61_A | 134_L | 1.077 | 0.95 |
| 265_V | 282_A | 1.075 | 0.95 |
| 119_S | 129_A | 1.075 | 0.95 |
| 250_I | 264_V | 1.072 | 0.95 |
| 266_V | 269_D | 1.067 | 0.95 |
| 287_V | 292_I | 1.066 | 0.95 |
| 232_N | 237_L | 1.064 | 0.95 |
| 44_A | 140_V | 1.060 | 0.95 |
| 6_G | 61_A | 1.052 | 0.95 |
| 72_I | 99_I | 1.051 | 0.94 |
| 301_E | 311_S | 1.051 | 0.94 |
| 271_H | 281_C | 1.048 | 0.94 |
| 274_T | 277_A | 1.044 | 0.94 |
| 19_A | 23_K | 1.040 | 0.94 |
| 135_V | 165_L | 1.038 | 0.94 |
| 116_Y | 308_T | 1.038 | 0.94 |
| 132_Y | 164_V | 1.033 | 0.94 |
| 75_I | 94_Q | 1.031 | 0.94 |
| 75_I | 99_I | 1.030 | 0.94 |
| 118_L | 312_A | 1.022 | 0.93 |
| 237_L | 297_L | 1.022 | 0.93 |
| 53_M | 140_V | 1.021 | 0.93 |
| 9_S | 281_C | 1.004 | 0.93 |
| 14_Q | 20_D | 1.004 | 0.93 |
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 | |
| 3il3A | 1 | 0.9937 | 100 | 0.162 | Contact Map |
| 1hnjA | 1 | 1 | 100 | 0.169 | Contact Map |
| 1mzjA | 2 | 1 | 100 | 0.182 | Contact Map |
| 4ewpA | 6 | 1 | 100 | 0.189 | Contact Map |
| 3h78A | 2 | 0.9937 | 100 | 0.201 | Contact Map |
| 4efiA | 1 | 1 | 100 | 0.201 | Contact Map |
| 2ebdA | 2 | 0.9715 | 100 | 0.202 | Contact Map |
| 1ub7A | 4 | 0.9905 | 100 | 0.202 | Contact Map |
| 1zowA | 4 | 0.9778 | 100 | 0.202 | Contact Map |
| 3gwaA | 2 | 1 | 100 | 0.209 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)