| DUF |
| ID: | 1410104426 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 337 (336) | ||
| Sequences: | 1048 (835.7) | ||
| Seq/Len: | 3.119 | ||
| Nf(neff/√len): | 45.6 |
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: 3.119).
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 |
| 175_Q | 204_D | 3.540 | 1.00 |
| 49_F | 58_L | 3.117 | 1.00 |
| 64_V | 67_A | 2.816 | 1.00 |
| 61_R | 109_I | 2.745 | 1.00 |
| 267_S | 286_G | 2.669 | 1.00 |
| 210_I | 221_A | 2.653 | 1.00 |
| 28_G | 45_P | 2.469 | 1.00 |
| 67_A | 116_V | 2.337 | 1.00 |
| 27_K | 46_D | 2.200 | 1.00 |
| 59_D | 107_N | 2.198 | 1.00 |
| 63_D | 111_H | 2.143 | 1.00 |
| 285_S | 293_Q | 2.114 | 1.00 |
| 126_R | 150_E | 2.096 | 1.00 |
| 163_R | 181_E | 2.068 | 1.00 |
| 111_H | 130_D | 2.018 | 1.00 |
| 8_L | 26_A | 1.987 | 1.00 |
| 175_Q | 202_L | 1.980 | 1.00 |
| 59_D | 105_N | 1.960 | 1.00 |
| 317_L | 331_L | 1.949 | 1.00 |
| 164_K | 179_N | 1.920 | 0.99 |
| 287_Y | 293_Q | 1.872 | 0.99 |
| 107_N | 132_N | 1.826 | 0.99 |
| 292_L | 309_L | 1.708 | 0.99 |
| 163_R | 183_I | 1.700 | 0.98 |
| 58_L | 104_I | 1.688 | 0.98 |
| 292_L | 311_Y | 1.680 | 0.98 |
| 112_V | 129_G | 1.618 | 0.98 |
| 288_V | 292_L | 1.608 | 0.98 |
| 23_R | 48_V | 1.601 | 0.98 |
| 195_A | 225_L | 1.596 | 0.97 |
| 162_V | 180_I | 1.575 | 0.97 |
| 314_M | 317_L | 1.571 | 0.97 |
| 158_Q | 184_R | 1.532 | 0.97 |
| 181_E | 198_R | 1.469 | 0.95 |
| 154_H | 159_D | 1.453 | 0.95 |
| 160_L | 184_R | 1.452 | 0.95 |
| 32_R | 225_L | 1.449 | 0.95 |
| 296_Y | 305_A | 1.441 | 0.95 |
| 167_L | 180_I | 1.420 | 0.94 |
| 122_G | 160_L | 1.418 | 0.94 |
| 313_L | 319_L | 1.412 | 0.94 |
| 287_Y | 290_P | 1.410 | 0.94 |
| 62_V | 110_V | 1.390 | 0.93 |
| 10_G | 24_V | 1.386 | 0.93 |
| 47_V | 60_G | 1.385 | 0.93 |
| 266_V | 286_G | 1.370 | 0.93 |
| 135_Q | 140_L | 1.361 | 0.92 |
| 210_I | 298_V | 1.356 | 0.92 |
| 127_L | 146_I | 1.347 | 0.92 |
| 142_L | 173_P | 1.340 | 0.91 |
| 113_G | 126_R | 1.336 | 0.91 |
| 109_I | 132_N | 1.321 | 0.91 |
| 155_A | 160_L | 1.321 | 0.91 |
| 200_T | 209_E | 1.317 | 0.90 |
| 119_D | 124_K | 1.291 | 0.89 |
| 196_G | 211_F | 1.283 | 0.89 |
| 129_G | 146_I | 1.278 | 0.89 |
| 216_M | 224_Y | 1.271 | 0.88 |
| 288_V | 309_L | 1.269 | 0.88 |
| 100_A | 108_L | 1.265 | 0.88 |
| 296_Y | 330_D | 1.264 | 0.88 |
| 25_T | 48_V | 1.261 | 0.88 |
| 84_D | 184_R | 1.255 | 0.87 |
| 139_G | 288_V | 1.251 | 0.87 |
| 180_I | 288_V | 1.250 | 0.87 |
| 44_S | 65_P | 1.242 | 0.87 |
| 184_R | 195_A | 1.241 | 0.87 |
| 61_R | 111_H | 1.234 | 0.86 |
| 133_V | 142_L | 1.234 | 0.86 |
| 133_V | 269_L | 1.230 | 0.86 |
| 267_S | 285_S | 1.227 | 0.86 |
| 5_E | 63_D | 1.220 | 0.85 |
| 94_P | 97_P | 1.209 | 0.85 |
| 160_L | 253_S | 1.206 | 0.84 |
| 30_K | 65_P | 1.200 | 0.84 |
| 180_I | 243_S | 1.197 | 0.84 |
| 160_L | 196_G | 1.194 | 0.84 |
| 75_P | 264_F | 1.191 | 0.83 |
| 175_Q | 203_A | 1.191 | 0.83 |
| 173_P | 184_R | 1.181 | 0.83 |
| 57_T | 105_N | 1.173 | 0.82 |
| 44_S | 105_N | 1.171 | 0.82 |
| 60_G | 176_P | 1.165 | 0.82 |
| 68_R | 115_N | 1.145 | 0.80 |
| 215_A | 288_V | 1.143 | 0.80 |
| 6_I | 31_V | 1.135 | 0.79 |
| 333_Y | 337_F | 1.125 | 0.78 |
| 244_M | 248_L | 1.115 | 0.77 |
| 158_Q | 171_G | 1.114 | 0.77 |
| 64_V | 116_V | 1.112 | 0.77 |
| 30_K | 43_V | 1.109 | 0.77 |
| 66_W | 115_N | 1.107 | 0.77 |
| 198_R | 209_E | 1.097 | 0.76 |
| 165_G | 182_A | 1.092 | 0.75 |
| 180_I | 199_V | 1.091 | 0.75 |
| 166_E | 179_N | 1.085 | 0.75 |
| 197_V | 224_Y | 1.085 | 0.75 |
| 16_Q | 43_V | 1.083 | 0.75 |
| 160_L | 211_F | 1.081 | 0.74 |
| 214_P | 228_G | 1.080 | 0.74 |
| 4_G | 285_S | 1.080 | 0.74 |
| 9_N | 208_A | 1.078 | 0.74 |
| 120_A | 314_M | 1.077 | 0.74 |
| 30_K | 178_L | 1.074 | 0.74 |
| 221_A | 298_V | 1.070 | 0.73 |
| 266_V | 269_L | 1.067 | 0.73 |
| 129_G | 160_L | 1.064 | 0.73 |
| 45_P | 301_F | 1.063 | 0.73 |
| 125_A | 148_I | 1.061 | 0.72 |
| 260_I | 288_V | 1.060 | 0.72 |
| 64_V | 127_L | 1.058 | 0.72 |
| 208_A | 222_L | 1.058 | 0.72 |
| 125_A | 226_L | 1.057 | 0.72 |
| 220_A | 231_L | 1.057 | 0.72 |
| 145_Q | 166_E | 1.055 | 0.72 |
| 225_L | 294_V | 1.053 | 0.72 |
| 109_I | 130_D | 1.052 | 0.71 |
| 72_H | 75_P | 1.050 | 0.71 |
| 46_D | 61_R | 1.047 | 0.71 |
| 257_V | 268_N | 1.046 | 0.71 |
| 108_L | 131_L | 1.038 | 0.70 |
| 122_G | 157_G | 1.034 | 0.70 |
| 322_V | 328_A | 1.032 | 0.69 |
| 106_S | 117_R | 1.028 | 0.69 |
| 108_L | 157_G | 1.028 | 0.69 |
| 33_I | 183_I | 1.027 | 0.69 |
| 183_I | 196_G | 1.027 | 0.69 |
| 45_P | 224_Y | 1.027 | 0.69 |
| 179_N | 200_T | 1.024 | 0.68 |
| 33_I | 133_V | 1.024 | 0.68 |
| 169_F | 176_P | 1.023 | 0.68 |
| 177_Y | 202_L | 1.022 | 0.68 |
| 325_V | 332_L | 1.019 | 0.68 |
| 157_G | 160_L | 1.017 | 0.68 |
| 206_P | 226_L | 1.016 | 0.68 |
| 116_V | 129_G | 1.015 | 0.67 |
| 58_L | 108_L | 1.014 | 0.67 |
| 201_G | 265_G | 1.012 | 0.67 |
| 68_R | 119_D | 1.012 | 0.67 |
| 77_S | 167_L | 1.010 | 0.67 |
| 201_G | 212_S | 1.007 | 0.67 |
| 160_L | 310_R | 1.005 | 0.66 |
| 147_N | 197_V | 1.002 | 0.66 |
| 45_P | 62_V | 1.001 | 0.66 |
| 237_D | 311_Y | 1.001 | 0.66 |
| 153_F | 324_G | 1.001 | 0.66 |
| 94_P | 199_V | 1.000 | 0.66 |
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 | |
| 3hpeA | 2 | 0.4421 | 9 | 0.963 | Contact Map |
| 3lycA | 16 | 0.3769 | 8.7 | 0.964 | Contact Map |
| 3my2A | 1 | 0.2404 | 5.8 | 0.967 | Contact Map |
| 4c69X | 1 | 0.6914 | 5.6 | 0.967 | Contact Map |
| 4fuvA | 1 | 0.1899 | 5.1 | 0.967 | Contact Map |
| 3petA | 2 | 0.3501 | 4.6 | 0.968 | Contact Map |
| 2kgsA | 1 | 0.2819 | 4.2 | 0.969 | Contact Map |
| 4i84A | 2 | 0.2611 | 4.1 | 0.969 | Contact Map |
| 1v1hA | 6 | 0.276 | 3.7 | 0.969 | Contact Map |
| 1wubA | 1 | 0.4659 | 3.6 | 0.97 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)