| Cc_PglC_HMM200_arobox |
| ID: | 1681161239 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 201 (200) | ||
| Sequences: | 2274 (1679.6) | ||
| Seq/Len: | 11.370 | ||
| Nf(neff/√len): | 118.8 |
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 |
| 117_E | 196_K | 4.875 | 1.00 |
| 54_I | 116_V | 4.428 | 1.00 |
| 128_H | 162_K | 4.160 | 1.00 |
| 128_H | 131_D | 3.488 | 1.00 |
| 125_T | 155_E | 3.354 | 1.00 |
| 178_E | 182_K | 3.151 | 1.00 |
| 152_K | 155_E | 3.147 | 1.00 |
| 34_Y | 39_R | 2.773 | 1.00 |
| 52_E | 127_K | 2.717 | 1.00 |
| 44_T | 56_K | 2.631 | 1.00 |
| 151_E | 200_K | 2.540 | 1.00 |
| 121_I | 198_N | 2.498 | 1.00 |
| 139_L | 143_N | 2.496 | 1.00 |
| 121_I | 196_K | 2.404 | 1.00 |
| 68_D | 72_E | 2.378 | 1.00 |
| 89_S | 183_R | 2.368 | 1.00 |
| 7_K | 41_V | 2.309 | 1.00 |
| 139_L | 159_Y | 2.207 | 1.00 |
| 67_R | 73_L | 2.146 | 1.00 |
| 188_K | 195_E | 2.089 | 1.00 |
| 46_A | 54_I | 2.076 | 1.00 |
| 64_S | 73_L | 2.067 | 1.00 |
| 101_V | 136_I | 2.035 | 1.00 |
| 57_I | 97_Q | 1.998 | 1.00 |
| 46_A | 56_K | 1.970 | 1.00 |
| 19_L | 99_F | 1.879 | 1.00 |
| 191_Q | 195_E | 1.814 | 1.00 |
| 159_Y | 163_N | 1.752 | 1.00 |
| 19_L | 102_L | 1.738 | 1.00 |
| 29_T | 92_L | 1.713 | 1.00 |
| 188_K | 191_Q | 1.688 | 1.00 |
| 86_L | 90_L | 1.670 | 1.00 |
| 8_R | 12_I | 1.660 | 1.00 |
| 109_I | 137_T | 1.654 | 1.00 |
| 179_K | 184_S | 1.612 | 1.00 |
| 148_I | 153_K | 1.605 | 1.00 |
| 152_K | 156_Y | 1.577 | 1.00 |
| 16_L | 102_L | 1.573 | 1.00 |
| 76_D | 193_T | 1.571 | 1.00 |
| 125_T | 162_K | 1.569 | 1.00 |
| 187_S | 191_Q | 1.568 | 1.00 |
| 12_I | 16_L | 1.546 | 1.00 |
| 64_S | 67_R | 1.524 | 1.00 |
| 71_G | 74_L | 1.493 | 1.00 |
| 18_L | 22_T | 1.477 | 1.00 |
| 80_L | 85_K | 1.462 | 1.00 |
| 12_I | 102_L | 1.460 | 1.00 |
| 14_G | 108_F | 1.433 | 1.00 |
| 8_R | 133_R | 1.406 | 0.99 |
| 61_K | 65_D | 1.405 | 0.99 |
| 14_G | 18_L | 1.391 | 0.99 |
| 25_I | 29_T | 1.386 | 0.99 |
| 121_I | 199_G | 1.384 | 0.99 |
| 188_K | 194_T | 1.381 | 0.99 |
| 109_I | 173_A | 1.376 | 0.99 |
| 171_K | 175_Q | 1.372 | 0.99 |
| 36_K | 83_F | 1.356 | 0.99 |
| 46_A | 116_V | 1.355 | 0.99 |
| 44_T | 58_Y | 1.346 | 0.99 |
| 89_S | 97_Q | 1.335 | 0.99 |
| 42_I | 58_Y | 1.320 | 0.99 |
| 187_S | 193_T | 1.311 | 0.99 |
| 19_L | 23_S | 1.300 | 0.99 |
| 33_I | 37_V | 1.299 | 0.99 |
| 159_Y | 168_L | 1.267 | 0.99 |
| 119_L | 130_H | 1.267 | 0.99 |
| 82_K | 86_L | 1.258 | 0.99 |
| 8_R | 15_A | 1.251 | 0.99 |
| 37_V | 61_K | 1.231 | 0.98 |
| 166_F | 170_V | 1.217 | 0.98 |
| 142_V | 175_Q | 1.212 | 0.98 |
| 139_L | 175_Q | 1.200 | 0.98 |
| 182_K | 185_G | 1.193 | 0.98 |
| 48_P | 130_H | 1.187 | 0.98 |
| 124_E | 127_K | 1.163 | 0.97 |
| 195_E | 198_N | 1.157 | 0.97 |
| 12_I | 15_A | 1.140 | 0.97 |
| 173_A | 177_I | 1.136 | 0.97 |
| 18_L | 108_F | 1.131 | 0.97 |
| 37_V | 83_F | 1.111 | 0.96 |
| 175_Q | 179_K | 1.104 | 0.96 |
| 123_N | 200_K | 1.104 | 0.96 |
| 33_I | 83_F | 1.091 | 0.96 |
| 34_Y | 37_V | 1.091 | 0.96 |
| 175_Q | 178_E | 1.090 | 0.96 |
| 40_D | 61_K | 1.088 | 0.96 |
| 68_D | 71_G | 1.084 | 0.96 |
| 33_I | 87_I | 1.081 | 0.95 |
| 174_L | 178_E | 1.071 | 0.95 |
| 58_Y | 99_F | 1.055 | 0.95 |
| 64_S | 81_G | 1.044 | 0.94 |
| 149_S | 153_K | 1.029 | 0.94 |
| 15_A | 19_L | 1.027 | 0.94 |
| 36_K | 40_D | 1.027 | 0.94 |
| 32_F | 83_F | 1.020 | 0.93 |
| 126_Q | 199_G | 1.016 | 0.93 |
| 10_I | 14_G | 1.007 | 0.93 |
| 97_Q | 106_M | 1.003 | 0.93 |
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 | |
| 1b0nB | 1 | 0.1443 | 4.8 | 0.977 | Contact Map |
| 1zfoA | 1 | 0.1493 | 3.6 | 0.978 | Contact Map |
| 1sqhA | 1 | 0.4925 | 2.8 | 0.979 | Contact Map |
| 4p55A | 2 | 0.4478 | 2.6 | 0.979 | Contact Map |
| 1hywA | 1 | 0.2687 | 1.9 | 0.981 | Contact Map |
| 2bzwB | 1 | 0.1343 | 1.9 | 0.981 | Contact Map |
| 1c1yB | 1 | 0.2587 | 1.8 | 0.981 | Contact Map |
| 1s6jA | 1 | 0.2438 | 1.7 | 0.981 | Contact Map |
| 4w8pB | 1 | 0.1045 | 1.7 | 0.981 | Contact Map |
| 1pi7A | 1 | 0.0945 | 1.6 | 0.982 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)