| 1DOZA |
| ID: | 1411752598 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 309 (306) | ||
| Sequences: | 1673 (1148) | ||
| Seq/Len: | 5.467 | ||
| Nf(neff/√len): | 65.6 |
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: 5.467).
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_T | 209_G | 3.779 | 1.00 |
| 181_A | 203_A | 3.464 | 1.00 |
| 59_T | 83_I | 3.174 | 1.00 |
| 69_H | 297_D | 2.892 | 1.00 |
| 186_E | 190_E | 2.844 | 1.00 |
| 228_P | 231_G | 2.730 | 1.00 |
| 61_Q | 291_A | 2.720 | 1.00 |
| 82_Y | 98_E | 2.692 | 1.00 |
| 149_E | 305_K | 2.621 | 1.00 |
| 145_S | 198_Q | 2.584 | 1.00 |
| 65_N | 293_P | 2.569 | 1.00 |
| 162_E | 292_K | 2.541 | 1.00 |
| 176_M | 216_A | 2.452 | 1.00 |
| 97_A | 101_K | 2.404 | 1.00 |
| 127_R | 130_E | 2.392 | 1.00 |
| 273_K | 277_D | 2.353 | 1.00 |
| 16_Y | 89_E | 2.278 | 1.00 |
| 207_A | 215_Y | 2.263 | 1.00 |
| 186_E | 228_P | 2.256 | 1.00 |
| 158_D | 294_E | 2.251 | 1.00 |
| 204_K | 208_E | 2.178 | 1.00 |
| 82_Y | 102_D | 2.169 | 1.00 |
| 27_H | 50_G | 2.159 | 1.00 |
| 249_A | 282_S | 2.145 | 1.00 |
| 26_T | 30_R | 2.122 | 1.00 |
| 201_E | 205_L | 2.109 | 1.00 |
| 10_M | 124_Y | 2.049 | 1.00 |
| 82_Y | 99_M | 2.049 | 1.00 |
| 238_T | 250_F | 2.027 | 1.00 |
| 203_A | 217_V | 2.008 | 1.00 |
| 17_K | 20_D | 1.892 | 1.00 |
| 161_K | 209_G | 1.887 | 1.00 |
| 189_K | 196_P | 1.886 | 1.00 |
| 160_V | 253_V | 1.884 | 1.00 |
| 62_Q | 296_I | 1.845 | 1.00 |
| 179_V | 206_I | 1.841 | 1.00 |
| 179_V | 215_Y | 1.839 | 1.00 |
| 187_K | 227_D | 1.821 | 1.00 |
| 58_I | 259_A | 1.786 | 1.00 |
| 254_P | 268_N | 1.727 | 1.00 |
| 106_E | 139_T | 1.709 | 1.00 |
| 84_G | 95_A | 1.687 | 1.00 |
| 148_D | 201_E | 1.681 | 1.00 |
| 65_N | 296_I | 1.680 | 1.00 |
| 56_A | 60_E | 1.663 | 1.00 |
| 200_H | 219_W | 1.660 | 1.00 |
| 197_D | 201_E | 1.636 | 0.99 |
| 184_L | 189_K | 1.616 | 0.99 |
| 89_E | 94_D | 1.592 | 0.99 |
| 201_E | 204_K | 1.591 | 0.99 |
| 151_K | 301_T | 1.591 | 0.99 |
| 248_Q | 281_A | 1.582 | 0.99 |
| 14_T | 56_A | 1.555 | 0.99 |
| 236_D | 239_R | 1.550 | 0.99 |
| 149_E | 302_V | 1.536 | 0.99 |
| 152_F | 156_W | 1.535 | 0.99 |
| 65_N | 291_A | 1.529 | 0.99 |
| 109_S | 128_A | 1.521 | 0.99 |
| 181_A | 217_V | 1.511 | 0.99 |
| 240_D | 245_K | 1.507 | 0.99 |
| 69_H | 300_A | 1.507 | 0.99 |
| 218_G | 234_V | 1.504 | 0.99 |
| 95_A | 99_M | 1.498 | 0.99 |
| 156_W | 206_I | 1.492 | 0.99 |
| 238_T | 272_C | 1.471 | 0.99 |
| 150_P | 209_G | 1.464 | 0.98 |
| 86_K | 123_S | 1.449 | 0.98 |
| 269_D | 285_R | 1.394 | 0.98 |
| 5_M | 106_E | 1.394 | 0.98 |
| 196_P | 200_H | 1.392 | 0.98 |
| 196_P | 219_W | 1.390 | 0.98 |
| 205_L | 208_E | 1.390 | 0.98 |
| 104_I | 107_A | 1.376 | 0.98 |
| 274_V | 277_D | 1.370 | 0.97 |
| 296_I | 299_L | 1.367 | 0.97 |
| 16_Y | 23_R | 1.356 | 0.97 |
| 179_V | 207_A | 1.356 | 0.97 |
| 237_L | 240_D | 1.355 | 0.97 |
| 99_M | 107_A | 1.332 | 0.97 |
| 52_I | 57_Q | 1.331 | 0.97 |
| 180_S | 220_Q | 1.316 | 0.96 |
| 164_Y | 251_V | 1.313 | 0.96 |
| 80_K | 102_D | 1.298 | 0.96 |
| 260_D | 290_N | 1.295 | 0.96 |
| 258_V | 295_F | 1.284 | 0.96 |
| 10_M | 92_I | 1.274 | 0.96 |
| 153_V | 209_G | 1.273 | 0.96 |
| 6_G | 104_I | 1.267 | 0.95 |
| 146_W | 258_V | 1.266 | 0.95 |
| 44_D | 47_E | 1.266 | 0.95 |
| 98_E | 102_D | 1.265 | 0.95 |
| 216_A | 237_L | 1.263 | 0.95 |
| 189_K | 197_D | 1.262 | 0.95 |
| 218_G | 237_L | 1.262 | 0.95 |
| 222_E | 233_D | 1.258 | 0.95 |
| 6_G | 95_A | 1.252 | 0.95 |
| 184_L | 188_I | 1.249 | 0.95 |
| 110_I | 299_L | 1.247 | 0.95 |
| 156_W | 289_P | 1.247 | 0.95 |
| 130_E | 133_E | 1.235 | 0.94 |
| 235_Q | 275_V | 1.218 | 0.94 |
| 108_V | 306_K | 1.211 | 0.94 |
| 203_A | 207_A | 1.208 | 0.94 |
| 8_L | 84_G | 1.199 | 0.93 |
| 203_A | 215_Y | 1.197 | 0.93 |
| 82_Y | 95_A | 1.190 | 0.93 |
| 58_I | 291_A | 1.186 | 0.93 |
| 155_Y | 289_P | 1.177 | 0.92 |
| 65_N | 68_Q | 1.166 | 0.92 |
| 18_E | 43_K | 1.166 | 0.92 |
| 298_A | 302_V | 1.165 | 0.92 |
| 146_W | 295_F | 1.163 | 0.92 |
| 158_D | 161_K | 1.151 | 0.91 |
| 99_M | 102_D | 1.148 | 0.91 |
| 178_I | 250_F | 1.147 | 0.91 |
| 147_Y | 205_L | 1.147 | 0.91 |
| 57_Q | 61_Q | 1.147 | 0.91 |
| 110_I | 143_V | 1.146 | 0.91 |
| 160_V | 177_L | 1.140 | 0.91 |
| 50_G | 135_L | 1.138 | 0.91 |
| 73_I | 301_T | 1.135 | 0.91 |
| 159_R | 287_E | 1.125 | 0.90 |
| 125_N | 142_S | 1.116 | 0.90 |
| 187_K | 191_F | 1.112 | 0.89 |
| 252_Y | 268_N | 1.110 | 0.89 |
| 169_E | 214_E | 1.109 | 0.89 |
| 157_V | 161_K | 1.108 | 0.89 |
| 163_T | 166_S | 1.091 | 0.88 |
| 141_T | 306_K | 1.085 | 0.88 |
| 93_E | 127_R | 1.081 | 0.87 |
| 66_L | 299_L | 1.079 | 0.87 |
| 6_G | 99_M | 1.065 | 0.86 |
| 115_H | 199_L | 1.062 | 0.86 |
| 16_Y | 20_D | 1.055 | 0.86 |
| 153_V | 205_L | 1.054 | 0.86 |
| 109_S | 142_S | 1.047 | 0.85 |
| 95_A | 98_E | 1.042 | 0.85 |
| 179_V | 253_V | 1.041 | 0.85 |
| 251_V | 284_Y | 1.037 | 0.84 |
| 178_I | 218_G | 1.036 | 0.84 |
| 58_I | 290_N | 1.036 | 0.84 |
| 272_C | 275_V | 1.033 | 0.84 |
| 66_L | 296_I | 1.033 | 0.84 |
| 149_E | 301_T | 1.029 | 0.84 |
| 239_R | 278_D | 1.028 | 0.84 |
| 108_V | 307_L | 1.025 | 0.83 |
| 163_T | 284_Y | 1.013 | 0.82 |
| 27_H | 135_L | 1.010 | 0.82 |
| 177_L | 253_V | 1.003 | 0.82 |
| 160_V | 206_I | 1.002 | 0.81 |
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 | |
| 2h1vA | 1 | 1 | 100 | 0.126 | Contact Map |
| 1lbqA | 2 | 0.9838 | 100 | 0.147 | Contact Map |
| 3hcnA | 2 | 0.9935 | 100 | 0.172 | Contact Map |
| 2xvyA | 1 | 0.8058 | 100 | 0.556 | Contact Map |
| 2xwpA | 1 | 0.7929 | 100 | 0.577 | Contact Map |
| 2jh3A | 4 | 0.7735 | 100 | 0.603 | Contact Map |
| 4ccsA | 1 | 0.7282 | 99.9 | 0.71 | Contact Map |
| 3lyhA | 2 | 0.3948 | 99.6 | 0.803 | Contact Map |
| 2xwsA | 1 | 0.3851 | 99.5 | 0.821 | Contact Map |
| 1tjnA | 1 | 0.3819 | 99.4 | 0.823 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)