| Alan Sutherland |
| ID: | 1672178628 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 283 (258) | ||
| Sequences: | 41893 (25035.5) | ||
| Seq/Len: | 162.376 | ||
| Nf(neff/√len): | 1558.6 |
HHblits Results: (2016_02)
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 |
| 132_D | 136_T | 3.288 | 1.00 |
| 132_D | 140_R | 3.240 | 1.00 |
| 90_V | 93_D | 3.107 | 1.00 |
| 161_L | 189_A | 3.067 | 1.00 |
| 32_A | 110_I | 2.761 | 1.00 |
| 113_S | 161_L | 2.708 | 1.00 |
| 158_R | 202_T | 2.649 | 1.00 |
| 183_G | 187_T | 2.611 | 1.00 |
| 43_R | 47_M | 2.592 | 1.00 |
| 48_E | 257_R | 2.208 | 1.00 |
| 138_N | 181_S | 2.199 | 1.00 |
| 38_G | 60_Y | 2.153 | 1.00 |
| 98_F | 149_A | 2.140 | 1.00 |
| 146_A | 192_M | 2.063 | 1.00 |
| 102_V | 152_H | 2.054 | 1.00 |
| 207_A | 274_V | 2.053 | 1.00 |
| 212_K | 251_L | 2.042 | 1.00 |
| 110_I | 263_A | 2.033 | 1.00 |
| 163_G | 186_E | 2.031 | 1.00 |
| 189_A | 205_V | 2.027 | 1.00 |
| 31_V | 55_K | 1.998 | 1.00 |
| 55_K | 80_D | 1.993 | 1.00 |
| 95_V | 148_E | 1.980 | 1.00 |
| 142_Q | 185_I | 1.976 | 1.00 |
| 48_E | 52_R | 1.973 | 1.00 |
| 136_T | 140_R | 1.922 | 1.00 |
| 150_Y | 196_M | 1.887 | 1.00 |
| 41_I | 211_I | 1.884 | 1.00 |
| 91_V | 128_P | 1.883 | 1.00 |
| 45_M | 259_V | 1.838 | 1.00 |
| 48_E | 51_R | 1.793 | 1.00 |
| 95_V | 99_E | 1.790 | 1.00 |
| 47_M | 73_A | 1.743 | 1.00 |
| 43_R | 70_V | 1.739 | 1.00 |
| 37_A | 58_V | 1.736 | 1.00 |
| 99_E | 103_K | 1.733 | 1.00 |
| 59_N | 86_A | 1.727 | 1.00 |
| 57_I | 101_A | 1.707 | 1.00 |
| 59_N | 97_M | 1.696 | 1.00 |
| 43_R | 73_A | 1.691 | 1.00 |
| 48_E | 260_C | 1.678 | 1.00 |
| 139_T | 184_A | 1.651 | 1.00 |
| 154_E | 199_K | 1.616 | 1.00 |
| 135_F | 139_T | 1.612 | 1.00 |
| 273_K | 276_G | 1.600 | 1.00 |
| 29_G | 54_C | 1.596 | 1.00 |
| 86_A | 93_D | 1.596 | 1.00 |
| 27_L | 54_C | 1.585 | 1.00 |
| 39_R | 214_D | 1.579 | 1.00 |
| 111_V | 145_V | 1.564 | 1.00 |
| 146_A | 159_L | 1.551 | 1.00 |
| 112_C | 162_M | 1.523 | 1.00 |
| 206_V | 259_V | 1.517 | 1.00 |
| 57_I | 105_F | 1.513 | 1.00 |
| 49_L | 263_A | 1.511 | 1.00 |
| 127_T | 130_E | 1.501 | 1.00 |
| 52_R | 260_C | 1.494 | 1.00 |
| 96_R | 100_E | 1.492 | 1.00 |
| 71_V | 75_K | 1.487 | 1.00 |
| 32_A | 49_L | 1.483 | 1.00 |
| 100_E | 104_I | 1.458 | 1.00 |
| 113_S | 146_A | 1.457 | 1.00 |
| 31_V | 107_K | 1.437 | 1.00 |
| 258_V | 275_I | 1.434 | 1.00 |
| 32_A | 54_C | 1.423 | 1.00 |
| 82_A | 104_I | 1.421 | 1.00 |
| 100_E | 103_K | 1.419 | 1.00 |
| 211_I | 250_G | 1.414 | 1.00 |
| 64_T | 68_E | 1.408 | 1.00 |
| 44_E | 253_I | 1.398 | 0.99 |
| 158_R | 204_N | 1.392 | 0.99 |
| 46_A | 58_V | 1.387 | 0.99 |
| 84_V | 100_E | 1.375 | 0.99 |
| 93_D | 96_R | 1.362 | 0.99 |
| 33_L | 97_M | 1.360 | 0.99 |
| 84_V | 97_M | 1.359 | 0.99 |
| 31_V | 57_I | 1.327 | 0.99 |
| 71_V | 83_C | 1.318 | 0.99 |
| 128_P | 144_F | 1.304 | 0.99 |
| 91_V | 144_F | 1.297 | 0.99 |
| 54_C | 110_I | 1.286 | 0.99 |
| 117_V | 137_I | 1.260 | 0.99 |
| 45_M | 256_A | 1.253 | 0.99 |
| 143_F | 188_F | 1.253 | 0.99 |
| 44_E | 47_M | 1.242 | 0.98 |
| 26_S | 266_D | 1.241 | 0.98 |
| 178_Y | 182_K | 1.235 | 0.98 |
| 94_I | 145_V | 1.233 | 0.98 |
| 189_A | 203_V | 1.231 | 0.98 |
| 86_A | 97_M | 1.231 | 0.98 |
| 68_E | 72_A | 1.230 | 0.98 |
| 258_V | 277_I | 1.206 | 0.98 |
| 26_S | 52_R | 1.198 | 0.98 |
| 163_G | 205_V | 1.189 | 0.98 |
| 82_A | 105_F | 1.185 | 0.98 |
| 55_K | 79_S | 1.180 | 0.98 |
| 89_G | 133_R | 1.179 | 0.98 |
| 140_R | 144_F | 1.179 | 0.98 |
| 47_M | 51_R | 1.178 | 0.98 |
| 257_R | 266_D | 1.171 | 0.98 |
| 91_V | 95_V | 1.169 | 0.97 |
| 128_P | 140_R | 1.165 | 0.97 |
| 108_L | 149_A | 1.153 | 0.97 |
| 146_A | 188_F | 1.146 | 0.97 |
| 92_E | 96_R | 1.142 | 0.97 |
| 49_L | 54_C | 1.138 | 0.97 |
| 131_F | 140_R | 1.136 | 0.97 |
| 135_F | 140_R | 1.136 | 0.97 |
| 129_E | 133_R | 1.130 | 0.97 |
| 72_A | 75_K | 1.112 | 0.96 |
| 111_V | 159_L | 1.099 | 0.96 |
| 48_E | 256_A | 1.095 | 0.96 |
| 49_L | 260_C | 1.086 | 0.96 |
| 96_R | 99_E | 1.072 | 0.95 |
| 122_H | 125_D | 1.071 | 0.95 |
| 162_M | 259_V | 1.068 | 0.95 |
| 55_K | 82_A | 1.060 | 0.95 |
| 45_M | 112_C | 1.059 | 0.95 |
| 44_E | 252_P | 1.051 | 0.94 |
| 57_I | 82_A | 1.041 | 0.94 |
| 128_P | 147_R | 1.040 | 0.94 |
| 63_S | 85_K | 1.038 | 0.94 |
| 30_K | 109_D | 1.037 | 0.94 |
| 176_A | 195_D | 1.035 | 0.94 |
| 250_G | 269_W | 1.035 | 0.94 |
| 88_V | 141_G | 1.034 | 0.94 |
| 192_M | 203_V | 1.029 | 0.94 |
| 31_V | 105_F | 1.027 | 0.94 |
| 167_G | 186_E | 1.022 | 0.93 |
| 72_A | 76_K | 1.017 | 0.93 |
| 164_S | 178_Y | 1.011 | 0.93 |
| 251_L | 254_D | 1.007 | 0.93 |
| 44_E | 48_E | 1.002 | 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 | |
| 1g0oA | 4 | 0.9894 | 100 | 0.108 | Contact Map |
| 3gk3A | 4 | 0.8587 | 100 | 0.188 | Contact Map |
| 3w8eA | 1 | 0.9046 | 100 | 0.193 | Contact Map |
| 3v2gA | 1 | 0.8869 | 100 | 0.194 | Contact Map |
| 1geeA | 4 | 0.8799 | 100 | 0.196 | Contact Map |
| 1vl8A | 2 | 0.8728 | 100 | 0.196 | Contact Map |
| 3ftpA | 4 | 0.8657 | 100 | 0.197 | Contact Map |
| 3wtcA | 2 | 0.9011 | 100 | 0.197 | Contact Map |
| 3v2hA | 2 | 0.8057 | 100 | 0.197 | Contact Map |
| 3uveA | 4 | 0.9117 | 100 | 0.198 | Contact Map |
Cov = coverage of hit
P(%) = probability