| Nterm 320-610 |
| ID: | 1410521334 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 291 (276) | ||
| Sequences: | 4188 (3879.1) | ||
| Seq/Len: | 15.174 | ||
| Nf(neff/√len): | 233.5 |
Jackhmmer Results: (2014_04_16)
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: 15.174).
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 |
| 164_M | 168_E | 3.864 | 1.00 |
| 249_G | 254_P | 3.301 | 1.00 |
| 135_N | 138_K | 2.965 | 1.00 |
| 262_A | 265_L | 2.820 | 1.00 |
| 223_A | 245_V | 2.701 | 1.00 |
| 103_T | 112_E | 2.575 | 1.00 |
| 35_V | 40_K | 2.321 | 1.00 |
| 212_G | 221_L | 2.153 | 1.00 |
| 145_S | 149_G | 2.146 | 1.00 |
| 224_T | 244_L | 2.060 | 1.00 |
| 35_V | 39_S | 1.929 | 1.00 |
| 59_L | 63_G | 1.895 | 1.00 |
| 258_A | 279_G | 1.839 | 1.00 |
| 229_G | 232_N | 1.821 | 1.00 |
| 251_V | 254_P | 1.679 | 1.00 |
| 203_L | 206_N | 1.672 | 1.00 |
| 47_T | 50_K | 1.666 | 1.00 |
| 63_G | 68_Y | 1.654 | 1.00 |
| 149_G | 155_G | 1.601 | 1.00 |
| 210_V | 223_A | 1.597 | 1.00 |
| 259_D | 278_E | 1.590 | 1.00 |
| 258_A | 262_A | 1.584 | 1.00 |
| 125_W | 155_G | 1.546 | 1.00 |
| 171_L | 175_V | 1.543 | 1.00 |
| 109_G | 134_I | 1.520 | 1.00 |
| 89_D | 100_D | 1.509 | 1.00 |
| 243_G | 260_I | 1.498 | 1.00 |
| 206_N | 227_A | 1.496 | 1.00 |
| 162_W | 166_V | 1.480 | 1.00 |
| 115_A | 127_G | 1.479 | 1.00 |
| 83_P | 86_I | 1.470 | 1.00 |
| 84_A | 88_L | 1.465 | 1.00 |
| 188_G | 194_W | 1.440 | 1.00 |
| 173_G | 176_K | 1.440 | 1.00 |
| 153_T | 157_L | 1.432 | 1.00 |
| 170_K | 173_G | 1.407 | 0.99 |
| 177_Q | 181_N | 1.400 | 0.99 |
| 182_V | 201_L | 1.389 | 0.99 |
| 64_K | 67_D | 1.378 | 0.99 |
| 196_I | 199_L | 1.373 | 0.99 |
| 193_Q | 215_G | 1.351 | 0.99 |
| 167_P | 185_T | 1.338 | 0.99 |
| 152_K | 155_G | 1.336 | 0.99 |
| 35_V | 45_P | 1.324 | 0.99 |
| 222_D | 246_K | 1.320 | 0.99 |
| 201_L | 204_G | 1.312 | 0.99 |
| 145_S | 157_L | 1.305 | 0.99 |
| 39_S | 57_L | 1.283 | 0.99 |
| 274_Q | 277_V | 1.276 | 0.99 |
| 200_H | 209_E | 1.274 | 0.99 |
| 275_V | 279_G | 1.272 | 0.99 |
| 114_K | 128_E | 1.272 | 0.99 |
| 184_G | 210_V | 1.270 | 0.99 |
| 113_L | 129_L | 1.261 | 0.99 |
| 31_L | 39_S | 1.253 | 0.99 |
| 184_G | 199_L | 1.247 | 0.99 |
| 104_V | 111_T | 1.246 | 0.98 |
| 64_K | 68_Y | 1.236 | 0.98 |
| 198_G | 210_V | 1.228 | 0.98 |
| 39_S | 46_F | 1.219 | 0.98 |
| 196_I | 210_V | 1.218 | 0.98 |
| 195_M | 213_E | 1.217 | 0.98 |
| 128_E | 152_K | 1.216 | 0.98 |
| 214_L | 221_L | 1.213 | 0.98 |
| 129_L | 151_I | 1.203 | 0.98 |
| 203_L | 245_V | 1.202 | 0.98 |
| 238_G | 266_R | 1.200 | 0.98 |
| 72_M | 76_V | 1.199 | 0.98 |
| 40_K | 45_P | 1.196 | 0.98 |
| 271_S | 274_Q | 1.194 | 0.98 |
| 12_L | 15_P | 1.194 | 0.98 |
| 70_L | 74_T | 1.192 | 0.98 |
| 270_L | 273_A | 1.185 | 0.98 |
| 23_Q | 26_L | 1.181 | 0.98 |
| 88_L | 92_G | 1.175 | 0.98 |
| 145_S | 155_G | 1.173 | 0.98 |
| 201_L | 208_A | 1.168 | 0.97 |
| 43_Y | 46_F | 1.167 | 0.97 |
| 269_E | 273_A | 1.165 | 0.97 |
| 222_D | 244_L | 1.159 | 0.97 |
| 41_Q | 45_P | 1.158 | 0.97 |
| 277_V | 281_I | 1.157 | 0.97 |
| 254_P | 258_A | 1.148 | 0.97 |
| 18_M | 22_A | 1.140 | 0.97 |
| 220_N | 248_R | 1.137 | 0.97 |
| 127_G | 168_E | 1.131 | 0.97 |
| 207_S | 226_N | 1.127 | 0.97 |
| 8_I | 13_S | 1.123 | 0.97 |
| 137_A | 140_F | 1.119 | 0.96 |
| 228_P | 233_A | 1.116 | 0.96 |
| 17_D | 20_L | 1.114 | 0.96 |
| 118_D | 124_S | 1.113 | 0.96 |
| 198_G | 211_K | 1.106 | 0.96 |
| 40_K | 46_F | 1.105 | 0.96 |
| 199_L | 210_V | 1.104 | 0.96 |
| 130_T | 150_L | 1.104 | 0.96 |
| 102_L | 106_A | 1.098 | 0.96 |
| 269_E | 276_R | 1.095 | 0.96 |
| 72_M | 75_A | 1.091 | 0.96 |
| 246_K | 257_L | 1.090 | 0.96 |
| 196_I | 212_G | 1.089 | 0.96 |
| 126_R | 154_R | 1.088 | 0.96 |
| 223_A | 227_A | 1.083 | 0.96 |
| 32_P | 35_V | 1.078 | 0.95 |
| 184_G | 198_G | 1.076 | 0.95 |
| 98_N | 116_L | 1.074 | 0.95 |
| 185_T | 198_G | 1.073 | 0.95 |
| 250_T | 254_P | 1.071 | 0.95 |
| 116_L | 126_R | 1.070 | 0.95 |
| 110_K | 132_N | 1.070 | 0.95 |
| 248_R | 255_Q | 1.065 | 0.95 |
| 91_K | 94_E | 1.064 | 0.95 |
| 70_L | 73_R | 1.059 | 0.95 |
| 106_A | 109_G | 1.057 | 0.95 |
| 160_G | 164_M | 1.056 | 0.95 |
| 31_L | 35_V | 1.052 | 0.95 |
| 273_A | 276_R | 1.043 | 0.94 |
| 256_L | 281_I | 1.038 | 0.94 |
| 99_L | 102_L | 1.038 | 0.94 |
| 40_K | 44_W | 1.035 | 0.94 |
| 276_R | 282_K | 1.035 | 0.94 |
| 22_A | 26_L | 1.033 | 0.94 |
| 155_G | 160_G | 1.031 | 0.94 |
| 202_E | 207_S | 1.031 | 0.94 |
| 185_T | 197_P | 1.031 | 0.94 |
| 220_N | 246_K | 1.029 | 0.94 |
| 85_T | 105_A | 1.025 | 0.93 |
| 227_A | 231_D | 1.025 | 0.93 |
| 223_A | 243_G | 1.023 | 0.93 |
| 206_N | 243_G | 1.022 | 0.93 |
| 264_G | 268_Q | 1.021 | 0.93 |
| 247_V | 256_L | 1.020 | 0.93 |
| 109_G | 131_L | 1.018 | 0.93 |
| 133_G | 148_N | 1.017 | 0.93 |
| 269_E | 279_G | 1.016 | 0.93 |
| 271_S | 281_I | 1.015 | 0.93 |
| 105_A | 110_K | 1.015 | 0.93 |
| 18_M | 23_Q | 1.011 | 0.93 |
| 16_V | 22_A | 1.008 | 0.93 |
| 210_V | 214_L | 1.006 | 0.93 |
| 131_L | 134_I | 1.003 | 0.93 |
| 19_D | 22_A | 1.003 | 0.93 |
| 113_L | 117_L | 1.002 | 0.92 |
| 245_V | 258_A | 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 | |
| 4opwA | 2 | 0.6667 | 37 | 0.908 | Contact Map |
| 3jx8A | 6 | 0.7113 | 33 | 0.911 | Contact Map |
| 3lycA | 16 | 0.6873 | 24.7 | 0.916 | Contact Map |
| 2xdtA | 1 | 0.323 | 5.4 | 0.938 | Contact Map |
| 1wxrA | 1 | 0.8866 | 4.5 | 0.94 | Contact Map |
| 3ebhA | 1 | 0.2955 | 4 | 0.941 | Contact Map |
| 4c69X | 1 | 0.6564 | 3.3 | 0.944 | Contact Map |
| 4gaaA | 2 | 0.2887 | 2.9 | 0.945 | Contact Map |
| 3petA | 2 | 0.3918 | 2.5 | 0.948 | Contact Map |
| 3uv1A | 2 | 0.6186 | 2.3 | 0.948 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)