| 3Chri |
| ID: | 1689712391 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 288 (263) | ||
| Sequences: | 12725 (7887.7) | ||
| Seq/Len: | 48.384 | ||
| Nf(neff/√len): | 486.4 |
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_K | 205_G | 3.207 | 1.00 |
| 22_E | 57_L | 3.177 | 1.00 |
| 223_P | 226_E | 3.079 | 1.00 |
| 93_K | 142_L | 3.056 | 1.00 |
| 89_T | 138_A | 2.981 | 1.00 |
| 129_I | 171_R | 2.798 | 1.00 |
| 51_R | 55_V | 2.796 | 1.00 |
| 31_V | 239_F | 2.717 | 1.00 |
| 93_K | 138_A | 2.587 | 1.00 |
| 52_R | 56_D | 2.482 | 1.00 |
| 145_T | 205_G | 2.464 | 1.00 |
| 211_E | 218_G | 2.443 | 1.00 |
| 18_P | 53_A | 2.384 | 1.00 |
| 147_S | 205_G | 2.351 | 1.00 |
| 167_R | 171_R | 2.298 | 1.00 |
| 276_A | 280_A | 2.221 | 1.00 |
| 85_I | 134_E | 2.141 | 1.00 |
| 145_T | 178_K | 2.121 | 1.00 |
| 16_D | 19_K | 2.095 | 1.00 |
| 102_M | 147_S | 2.078 | 1.00 |
| 198_R | 230_A | 2.037 | 1.00 |
| 96_D | 142_L | 2.012 | 1.00 |
| 82_E | 86_A | 1.993 | 1.00 |
| 53_A | 56_D | 1.988 | 1.00 |
| 53_A | 57_L | 1.917 | 1.00 |
| 211_E | 220_G | 1.892 | 1.00 |
| 95_M | 100_C | 1.849 | 1.00 |
| 48_D | 97_G | 1.834 | 1.00 |
| 279_L | 283_K | 1.825 | 1.00 |
| 92_L | 142_L | 1.817 | 1.00 |
| 54_A | 61_L | 1.816 | 1.00 |
| 126_D | 171_R | 1.758 | 1.00 |
| 137_R | 174_S | 1.757 | 1.00 |
| 86_A | 90_D | 1.756 | 1.00 |
| 163_E | 199_L | 1.733 | 1.00 |
| 22_E | 26_K | 1.730 | 1.00 |
| 230_A | 233_D | 1.721 | 1.00 |
| 25_K | 57_L | 1.712 | 1.00 |
| 166_L | 199_L | 1.706 | 1.00 |
| 166_L | 170_E | 1.693 | 1.00 |
| 198_R | 233_D | 1.680 | 1.00 |
| 192_S | 195_G | 1.663 | 1.00 |
| 44_A | 97_G | 1.660 | 1.00 |
| 125_W | 167_R | 1.651 | 1.00 |
| 21_A | 57_L | 1.622 | 1.00 |
| 23_K | 26_K | 1.599 | 1.00 |
| 138_A | 141_D | 1.595 | 1.00 |
| 49_A | 52_R | 1.594 | 1.00 |
| 225_A | 229_Q | 1.593 | 1.00 |
| 280_A | 284_Q | 1.578 | 1.00 |
| 81_R | 131_S | 1.570 | 1.00 |
| 18_P | 56_D | 1.567 | 1.00 |
| 136_A | 177_M | 1.561 | 1.00 |
| 137_R | 141_D | 1.558 | 1.00 |
| 147_S | 180_L | 1.555 | 1.00 |
| 92_L | 139_A | 1.553 | 1.00 |
| 281_F | 285_H | 1.516 | 1.00 |
| 90_D | 93_K | 1.480 | 1.00 |
| 219_L | 277_D | 1.461 | 1.00 |
| 138_A | 142_L | 1.461 | 1.00 |
| 140_E | 176_S | 1.455 | 1.00 |
| 89_T | 93_K | 1.454 | 1.00 |
| 18_P | 49_A | 1.449 | 1.00 |
| 46_E | 49_A | 1.436 | 1.00 |
| 52_R | 55_V | 1.434 | 1.00 |
| 195_G | 199_L | 1.429 | 1.00 |
| 47_M | 97_G | 1.423 | 1.00 |
| 21_A | 53_A | 1.419 | 1.00 |
| 27_A | 279_L | 1.391 | 0.99 |
| 123_R | 126_D | 1.391 | 0.99 |
| 140_E | 174_S | 1.385 | 0.99 |
| 19_K | 22_E | 1.385 | 0.99 |
| 22_E | 53_A | 1.376 | 0.99 |
| 127_R | 130_D | 1.374 | 0.99 |
| 88_L | 135_L | 1.371 | 0.99 |
| 78_K | 82_E | 1.361 | 0.99 |
| 85_I | 89_T | 1.338 | 0.99 |
| 82_E | 134_E | 1.333 | 0.99 |
| 21_A | 54_A | 1.332 | 0.99 |
| 92_L | 138_A | 1.332 | 0.99 |
| 3_G | 241_V | 1.317 | 0.99 |
| 125_W | 171_R | 1.315 | 0.99 |
| 181_L | 186_M | 1.307 | 0.99 |
| 136_A | 172_I | 1.302 | 0.99 |
| 178_K | 203_R | 1.298 | 0.99 |
| 25_K | 58_G | 1.285 | 0.99 |
| 126_D | 130_D | 1.283 | 0.99 |
| 1_K | 60_E | 1.282 | 0.99 |
| 133_R | 173_G | 1.277 | 0.99 |
| 129_I | 133_R | 1.265 | 0.99 |
| 150_I | 186_M | 1.253 | 0.99 |
| 89_T | 134_E | 1.250 | 0.99 |
| 29_F | 242_I | 1.230 | 0.98 |
| 194_P | 226_E | 1.227 | 0.98 |
| 73_L | 131_S | 1.206 | 0.98 |
| 273_R | 277_D | 1.186 | 0.98 |
| 230_A | 234_A | 1.181 | 0.98 |
| 130_D | 133_R | 1.179 | 0.98 |
| 24_I | 29_F | 1.177 | 0.98 |
| 183_T | 227_I | 1.168 | 0.97 |
| 229_Q | 233_D | 1.164 | 0.97 |
| 51_R | 97_G | 1.150 | 0.97 |
| 93_K | 97_G | 1.146 | 0.97 |
| 143_G | 176_S | 1.144 | 0.97 |
| 195_G | 198_R | 1.138 | 0.97 |
| 92_L | 144_S | 1.138 | 0.97 |
| 130_D | 134_E | 1.136 | 0.97 |
| 167_R | 170_E | 1.130 | 0.97 |
| 165_G | 179_L | 1.129 | 0.97 |
| 95_M | 103_M | 1.125 | 0.97 |
| 182_D | 243_E | 1.122 | 0.97 |
| 201_G | 234_A | 1.121 | 0.97 |
| 49_A | 53_A | 1.121 | 0.97 |
| 140_E | 175_P | 1.121 | 0.97 |
| 160_N | 164_E | 1.118 | 0.96 |
| 48_D | 52_R | 1.112 | 0.96 |
| 96_D | 143_G | 1.108 | 0.96 |
| 101_R | 145_T | 1.103 | 0.96 |
| 31_V | 60_E | 1.102 | 0.96 |
| 18_P | 22_E | 1.096 | 0.96 |
| 166_L | 200_A | 1.093 | 0.96 |
| 24_I | 32_M | 1.093 | 0.96 |
| 209_L | 240_A | 1.092 | 0.96 |
| 51_R | 99_G | 1.090 | 0.96 |
| 81_R | 127_R | 1.087 | 0.96 |
| 207_M | 231_L | 1.086 | 0.96 |
| 170_E | 203_R | 1.084 | 0.96 |
| 179_L | 200_A | 1.069 | 0.95 |
| 89_T | 141_D | 1.064 | 0.95 |
| 272_D | 276_A | 1.064 | 0.95 |
| 139_A | 146_C | 1.064 | 0.95 |
| 80_T | 83_H | 1.059 | 0.95 |
| 216_L | 219_L | 1.044 | 0.94 |
| 31_V | 63_V | 1.044 | 0.94 |
| 217_P | 278_S | 1.040 | 0.94 |
| 93_K | 96_D | 1.040 | 0.94 |
| 225_A | 285_H | 1.038 | 0.94 |
| 33_E | 241_V | 1.032 | 0.94 |
| 47_M | 94_R | 1.030 | 0.94 |
| 86_A | 89_T | 1.028 | 0.94 |
| 77_D | 80_T | 1.023 | 0.93 |
| 185_H | 210_G | 1.020 | 0.93 |
| 194_P | 198_R | 1.004 | 0.93 |
| 54_A | 59_L | 1.004 | 0.93 |
| 123_R | 127_R | 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 | |
| 3vniA | 4 | 0.9965 | 100 | 0.101 | Contact Map |
| 2hk0A | 4 | 0.9965 | 100 | 0.101 | Contact Map |
| 2qulA | 4 | 0.9931 | 100 | 0.102 | Contact Map |
| 3vylA | 8 | 0.9618 | 100 | 0.143 | Contact Map |
| 2qw5A | 2 | 0.9618 | 100 | 0.159 | Contact Map |
| 3kwsA | 2 | 0.8924 | 100 | 0.178 | Contact Map |
| 3wqoA | 2 | 0.8854 | 100 | 0.185 | Contact Map |
| 1i60A | 1 | 0.8993 | 100 | 0.194 | Contact Map |
| 3cqjA | 2 | 0.8958 | 100 | 0.205 | Contact Map |
| 2zvrA | 2 | 0.8819 | 100 | 0.208 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)