| hAk1 |
| ID: | 1680712489 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 196 (188) | ||
| Sequences: | 26323 (16531.2) | ||
| Seq/Len: | 140.016 | ||
| Nf(neff/√len): | 1205.7 |
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 |
| 178_G | 186_Q | 3.269 | 1.00 |
| 32_K | 188_C | 3.137 | 1.00 |
| 28_K | 184_F | 3.007 | 1.00 |
| 125_T | 128_Q | 2.618 | 1.00 |
| 120_D | 173_K | 2.537 | 1.00 |
| 179_S | 182_S | 2.298 | 1.00 |
| 144_E | 148_K | 2.119 | 1.00 |
| 119_V | 176_A | 2.116 | 1.00 |
| 151_L | 155_Y | 2.072 | 1.00 |
| 25_Q | 187_V | 2.065 | 1.00 |
| 152_E | 156_K | 2.046 | 1.00 |
| 14_V | 26_C | 2.039 | 1.00 |
| 32_K | 184_F | 1.993 | 1.00 |
| 172_R | 190_H | 1.977 | 1.00 |
| 28_K | 31_Q | 1.960 | 1.00 |
| 122_G | 125_T | 1.938 | 1.00 |
| 25_Q | 184_F | 1.928 | 1.00 |
| 80_A | 83_A | 1.927 | 1.00 |
| 178_G | 182_S | 1.904 | 1.00 |
| 122_G | 177_E | 1.889 | 1.00 |
| 121_A | 126_M | 1.887 | 1.00 |
| 128_Q | 132_K | 1.837 | 1.00 |
| 26_C | 37_H | 1.770 | 1.00 |
| 43_L | 46_S | 1.768 | 1.00 |
| 115_L | 172_R | 1.752 | 1.00 |
| 123_P | 155_Y | 1.723 | 1.00 |
| 117_L | 190_H | 1.714 | 1.00 |
| 47_E | 79_D | 1.673 | 1.00 |
| 120_D | 175_N | 1.649 | 1.00 |
| 125_T | 177_E | 1.623 | 1.00 |
| 20_S | 121_A | 1.610 | 1.00 |
| 25_Q | 183_V | 1.595 | 1.00 |
| 186_Q | 189_T | 1.577 | 1.00 |
| 188_C | 192_D | 1.577 | 1.00 |
| 184_F | 188_C | 1.540 | 1.00 |
| 28_K | 32_K | 1.503 | 1.00 |
| 123_P | 148_K | 1.499 | 1.00 |
| 33_Y | 188_C | 1.492 | 1.00 |
| 57_K | 60_E | 1.487 | 1.00 |
| 145_E | 149_K | 1.467 | 1.00 |
| 180_V | 184_F | 1.460 | 1.00 |
| 186_Q | 190_H | 1.447 | 1.00 |
| 44_L | 73_V | 1.420 | 1.00 |
| 130_L | 147_I | 1.415 | 1.00 |
| 27_E | 30_V | 1.412 | 1.00 |
| 121_A | 125_T | 1.394 | 0.99 |
| 121_A | 176_A | 1.394 | 0.99 |
| 127_T | 148_K | 1.389 | 0.99 |
| 36_T | 89_K | 1.380 | 0.99 |
| 149_K | 152_E | 1.374 | 0.99 |
| 185_S | 189_T | 1.367 | 0.99 |
| 174_V | 183_V | 1.345 | 0.99 |
| 10_N | 90_G | 1.331 | 0.99 |
| 17_G | 126_M | 1.310 | 0.99 |
| 25_Q | 28_K | 1.299 | 0.99 |
| 32_K | 185_S | 1.299 | 0.99 |
| 117_L | 172_R | 1.297 | 0.99 |
| 190_H | 193_A | 1.285 | 0.99 |
| 118_Y | 173_K | 1.279 | 0.99 |
| 41_G | 45_R | 1.273 | 0.99 |
| 100_V | 168_R | 1.272 | 0.99 |
| 30_V | 37_H | 1.266 | 0.99 |
| 176_A | 183_V | 1.252 | 0.99 |
| 121_A | 129_R | 1.251 | 0.99 |
| 59_S | 63_E | 1.246 | 0.98 |
| 24_T | 180_V | 1.235 | 0.98 |
| 76_M | 79_D | 1.231 | 0.98 |
| 27_E | 31_Q | 1.204 | 0.98 |
| 163_A | 173_K | 1.189 | 0.98 |
| 107_E | 168_R | 1.185 | 0.98 |
| 153_T | 157_A | 1.183 | 0.98 |
| 74_L | 96_Y | 1.171 | 0.98 |
| 172_R | 194_L | 1.149 | 0.97 |
| 123_P | 152_E | 1.142 | 0.97 |
| 80_A | 84_K | 1.129 | 0.97 |
| 78_R | 82_V | 1.126 | 0.97 |
| 159_E | 163_A | 1.119 | 0.96 |
| 39_S | 42_D | 1.118 | 0.96 |
| 42_D | 46_S | 1.114 | 0.96 |
| 166_E | 173_K | 1.107 | 0.96 |
| 26_C | 39_S | 1.098 | 0.96 |
| 117_L | 187_V | 1.094 | 0.96 |
| 124_E | 128_Q | 1.087 | 0.96 |
| 104_E | 108_R | 1.082 | 0.96 |
| 182_S | 185_S | 1.074 | 0.95 |
| 148_K | 152_E | 1.071 | 0.95 |
| 146_T | 149_K | 1.068 | 0.95 |
| 178_G | 183_V | 1.054 | 0.95 |
| 19_G | 130_L | 1.053 | 0.95 |
| 12_I | 117_L | 1.050 | 0.94 |
| 28_K | 181_D | 1.049 | 0.94 |
| 25_Q | 119_V | 1.046 | 0.94 |
| 30_V | 34_G | 1.042 | 0.94 |
| 26_C | 92_L | 1.038 | 0.94 |
| 52_S | 55_G | 1.026 | 0.94 |
| 175_N | 178_G | 1.014 | 0.93 |
| 123_P | 127_T | 1.006 | 0.93 |
| 29_I | 187_V | 1.003 | 0.93 |
| 46_S | 50_S | 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 | |
| 2c95A | 2 | 1 | 99.9 | 0.128 | Contact Map |
| 3gmtA | 2 | 0.8469 | 99.9 | 0.163 | Contact Map |
| 1qf9A | 1 | 0.9694 | 99.9 | 0.178 | Contact Map |
| 1ukzA | 1 | 0.9898 | 99.9 | 0.181 | Contact Map |
| 3umfA | 1 | 0.949 | 99.9 | 0.182 | Contact Map |
| 1tevA | 1 | 0.9541 | 99.9 | 0.184 | Contact Map |
| 1akyA | 1 | 0.9541 | 99.9 | 0.188 | Contact Map |
| 1zakA | 2 | 0.9592 | 99.9 | 0.197 | Contact Map |
| 3tlxA | 4 | 0.9796 | 99.9 | 0.197 | Contact Map |
| 4qbgB | 1 | 0.949 | 99.9 | 0.2 | Contact Map |
Cov = coverage of hit
P(%) = probability