| TssGmeta |
| ID: | 1518568460 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 303 (273) | ||
| Sequences: | 8456 (5641.9) | ||
| Seq/Len: | 30.974 | ||
| Nf(neff/√len): | 341.5 |
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: 30.974).
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 |
| 154_R | 184_T | 4.219 | 1.00 |
| 198_T | 201_E | 3.593 | 1.00 |
| 120_L | 140_L | 3.438 | 1.00 |
| 133_G | 222_Y | 3.250 | 1.00 |
| 191_L | 230_R | 3.042 | 1.00 |
| 31_Y | 59_L | 2.780 | 1.00 |
| 199_G | 203_Q | 2.777 | 1.00 |
| 155_R | 189_Q | 2.725 | 1.00 |
| 150_W | 193_Q | 2.694 | 1.00 |
| 147_A | 194_L | 2.668 | 1.00 |
| 148_R | 193_Q | 2.621 | 1.00 |
| 138_V | 147_A | 2.593 | 1.00 |
| 25_V | 67_I | 2.580 | 1.00 |
| 9_K | 26_T | 2.565 | 1.00 |
| 48_Q | 52_H | 2.428 | 1.00 |
| 189_Q | 230_R | 2.399 | 1.00 |
| 11_A | 23_V | 2.341 | 1.00 |
| 204_G | 211_L | 2.319 | 1.00 |
| 190_V | 229_V | 2.242 | 1.00 |
| 111_A | 217_A | 2.227 | 1.00 |
| 172_S | 175_S | 2.202 | 1.00 |
| 190_V | 223_L | 2.197 | 1.00 |
| 198_T | 239_L | 2.169 | 1.00 |
| 193_Q | 234_C | 2.148 | 1.00 |
| 149_V | 192_L | 2.124 | 1.00 |
| 204_G | 210_H | 2.122 | 1.00 |
| 165_M | 177_P | 2.083 | 1.00 |
| 201_E | 204_G | 2.080 | 1.00 |
| 12_V | 22_I | 2.073 | 1.00 |
| 172_S | 176_R | 2.069 | 1.00 |
| 109_N | 114_V | 2.046 | 1.00 |
| 45_I | 55_A | 2.022 | 1.00 |
| 89_D | 92_S | 1.991 | 1.00 |
| 64_H | 68_T | 1.976 | 1.00 |
| 198_T | 236_E | 1.964 | 1.00 |
| 142_A | 215_L | 1.962 | 1.00 |
| 28_M | 67_I | 1.931 | 1.00 |
| 203_Q | 255_Q | 1.922 | 1.00 |
| 191_L | 232_Q | 1.906 | 1.00 |
| 192_L | 219_L | 1.887 | 1.00 |
| 150_W | 191_L | 1.880 | 1.00 |
| 60_D | 63_S | 1.842 | 1.00 |
| 131_A | 151_H | 1.838 | 1.00 |
| 193_Q | 232_Q | 1.836 | 1.00 |
| 263_R | 267_K | 1.826 | 1.00 |
| 201_E | 211_L | 1.807 | 1.00 |
| 134_L | 222_Y | 1.801 | 1.00 |
| 160_K | 163_L | 1.768 | 1.00 |
| 155_R | 185_D | 1.751 | 1.00 |
| 135_T | 149_V | 1.745 | 1.00 |
| 56_A | 60_D | 1.672 | 1.00 |
| 117_F | 221_V | 1.662 | 1.00 |
| 135_T | 139_T | 1.660 | 1.00 |
| 31_Y | 63_S | 1.639 | 1.00 |
| 83_F | 115_S | 1.614 | 1.00 |
| 190_V | 227_L | 1.612 | 1.00 |
| 135_T | 148_R | 1.609 | 1.00 |
| 124_M | 222_Y | 1.584 | 1.00 |
| 153_D | 191_L | 1.582 | 1.00 |
| 156_R | 182_H | 1.570 | 1.00 |
| 142_A | 205_W | 1.562 | 1.00 |
| 129_R | 222_Y | 1.560 | 1.00 |
| 96_L | 107_A | 1.547 | 1.00 |
| 197_Q | 233_L | 1.539 | 1.00 |
| 74_W | 81_A | 1.535 | 1.00 |
| 236_E | 239_L | 1.512 | 1.00 |
| 138_V | 192_L | 1.504 | 1.00 |
| 137_L | 218_L | 1.496 | 1.00 |
| 158_P | 182_H | 1.465 | 1.00 |
| 53_E | 57_D | 1.456 | 1.00 |
| 10_D | 24_H | 1.450 | 1.00 |
| 150_W | 153_D | 1.436 | 1.00 |
| 96_L | 118_L | 1.433 | 1.00 |
| 145_T | 194_L | 1.424 | 1.00 |
| 189_Q | 228_D | 1.402 | 0.99 |
| 215_L | 231_L | 1.397 | 0.99 |
| 161_T | 164_T | 1.384 | 0.99 |
| 111_A | 213_S | 1.379 | 0.99 |
| 194_L | 197_Q | 1.377 | 0.99 |
| 101_L | 221_V | 1.368 | 0.99 |
| 11_A | 21_P | 1.361 | 0.99 |
| 202_V | 235_V | 1.353 | 0.99 |
| 146_Q | 195_S | 1.351 | 0.99 |
| 211_L | 214_D | 1.329 | 0.99 |
| 57_D | 60_D | 1.323 | 0.99 |
| 31_Y | 45_I | 1.312 | 0.99 |
| 243_A | 254_P | 1.312 | 0.99 |
| 156_R | 184_T | 1.309 | 0.99 |
| 119_A | 140_L | 1.306 | 0.99 |
| 157_I | 185_D | 1.306 | 0.99 |
| 137_L | 222_Y | 1.298 | 0.99 |
| 170_P | 176_R | 1.296 | 0.99 |
| 14_P | 22_I | 1.294 | 0.99 |
| 131_A | 149_V | 1.294 | 0.99 |
| 153_D | 189_Q | 1.284 | 0.99 |
| 130_T | 133_G | 1.280 | 0.99 |
| 195_S | 234_C | 1.277 | 0.99 |
| 5_A | 9_K | 1.277 | 0.99 |
| 55_A | 59_L | 1.272 | 0.99 |
| 112_T | 218_L | 1.270 | 0.99 |
| 255_Q | 258_R | 1.248 | 0.99 |
| 124_M | 221_V | 1.243 | 0.98 |
| 155_R | 228_D | 1.228 | 0.98 |
| 14_P | 20_P | 1.228 | 0.98 |
| 134_L | 219_L | 1.226 | 0.98 |
| 28_M | 66_L | 1.221 | 0.98 |
| 208_G | 255_Q | 1.220 | 0.98 |
| 123_L | 136_S | 1.215 | 0.98 |
| 99_A | 121_L | 1.212 | 0.98 |
| 255_Q | 259_T | 1.210 | 0.98 |
| 220_H | 225_S | 1.204 | 0.98 |
| 97_G | 102_G | 1.203 | 0.98 |
| 199_G | 241_P | 1.202 | 0.98 |
| 75_R | 85_A | 1.192 | 0.98 |
| 243_A | 260_A | 1.192 | 0.98 |
| 132_E | 136_S | 1.190 | 0.98 |
| 126_L | 130_T | 1.183 | 0.98 |
| 45_I | 56_A | 1.173 | 0.98 |
| 185_D | 188_G | 1.171 | 0.98 |
| 132_E | 135_T | 1.162 | 0.97 |
| 108_Q | 114_V | 1.157 | 0.97 |
| 190_V | 219_L | 1.155 | 0.97 |
| 199_G | 259_T | 1.153 | 0.97 |
| 141_L | 214_D | 1.151 | 0.97 |
| 145_T | 205_W | 1.148 | 0.97 |
| 83_F | 92_S | 1.145 | 0.97 |
| 83_F | 89_D | 1.130 | 0.97 |
| 165_M | 171_V | 1.120 | 0.96 |
| 94_Y | 97_G | 1.119 | 0.96 |
| 47_Q | 50_E | 1.113 | 0.96 |
| 13_I | 21_P | 1.094 | 0.96 |
| 159_L | 178_V | 1.094 | 0.96 |
| 123_L | 133_G | 1.076 | 0.95 |
| 123_L | 130_T | 1.068 | 0.95 |
| 197_Q | 201_E | 1.064 | 0.95 |
| 74_W | 78_S | 1.060 | 0.95 |
| 216_L | 220_H | 1.058 | 0.95 |
| 244_R | 247_C | 1.054 | 0.95 |
| 141_L | 218_L | 1.050 | 0.94 |
| 71_Y | 74_W | 1.040 | 0.94 |
| 164_T | 181_D | 1.030 | 0.94 |
| 203_Q | 259_T | 1.028 | 0.94 |
| 12_V | 24_H | 1.027 | 0.94 |
| 44_D | 48_Q | 1.020 | 0.93 |
| 63_S | 67_I | 1.018 | 0.93 |
| 219_L | 229_V | 1.015 | 0.93 |
| 14_P | 21_P | 1.011 | 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 | |
| 2csiA | 1 | 0.1518 | 25.9 | 0.963 | Contact Map |
| 2egeA | 1 | 0.1485 | 23.5 | 0.964 | Contact Map |
| 2mioA | 1 | 0.132 | 21.5 | 0.965 | Contact Map |
| 2ct4A | 1 | 0.1551 | 19.3 | 0.966 | Contact Map |
| 1ugvA | 1 | 0.1518 | 19 | 0.966 | Contact Map |
| 4z88A | 12 | 0 | 18.2 | 0.966 | Contact Map |
| 4z8aA | 1 | 0 | 17.2 | 0.966 | Contact Map |
| 1ckaA | 1 | 0.132 | 16.7 | 0.967 | Contact Map |
| 2eyxA | 1 | 0.1419 | 16.2 | 0.967 | Contact Map |
| 2gtjA | 1 | 0.1749 | 16.2 | 0.967 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)