| C52JH |
| ID: | 1465504023 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 190 (188) | ||
| Sequences: | 2763 (1361.9) | ||
| Seq/Len: | 14.697 | ||
| Nf(neff/√len): | 99.3 |
Jackhmmer Results: (2016_04)
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: 14.697).
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 |
| 25_C | 84_T | 2.717 | 1.00 |
| 22_I | 26_G | 2.492 | 1.00 |
| 122_G | 178_G | 2.406 | 1.00 |
| 27_L | 163_A | 2.377 | 1.00 |
| 98_T | 121_G | 2.282 | 1.00 |
| 65_K | 68_D | 1.927 | 1.00 |
| 136_L | 167_G | 1.895 | 1.00 |
| 146_E | 149_D | 1.887 | 1.00 |
| 82_A | 86_S | 1.873 | 1.00 |
| 69_S | 72_A | 1.842 | 1.00 |
| 19_G | 23_L | 1.819 | 1.00 |
| 18_W | 91_A | 1.775 | 1.00 |
| 133_L | 171_T | 1.752 | 1.00 |
| 28_P | 52_M | 1.739 | 1.00 |
| 76_E | 80_A | 1.725 | 1.00 |
| 75_T | 79_A | 1.723 | 1.00 |
| 48_K | 53_S | 1.704 | 1.00 |
| 54_C | 64_C | 1.628 | 1.00 |
| 20_G | 170_A | 1.622 | 1.00 |
| 24_A | 167_G | 1.612 | 1.00 |
| 140_A | 168_W | 1.605 | 1.00 |
| 84_T | 132_A | 1.580 | 1.00 |
| 20_G | 166_I | 1.561 | 1.00 |
| 18_W | 92_F | 1.489 | 1.00 |
| 149_D | 152_V | 1.481 | 1.00 |
| 10_G | 177_G | 1.455 | 1.00 |
| 27_L | 162_A | 1.428 | 1.00 |
| 23_L | 27_L | 1.406 | 0.99 |
| 87_A | 128_C | 1.402 | 0.99 |
| 10_G | 181_L | 1.370 | 0.99 |
| 129_G | 175_M | 1.370 | 0.99 |
| 37_D | 40_I | 1.368 | 0.99 |
| 27_L | 49_G | 1.362 | 0.99 |
| 29_M | 47_W | 1.347 | 0.99 |
| 24_A | 170_A | 1.346 | 0.99 |
| 22_I | 88_V | 1.325 | 0.99 |
| 9_L | 13_L | 1.324 | 0.99 |
| 132_A | 170_A | 1.320 | 0.99 |
| 4_A | 12_V | 1.300 | 0.99 |
| 112_P | 116_R | 1.287 | 0.99 |
| 78_Q | 81_R | 1.287 | 0.99 |
| 84_T | 88_V | 1.285 | 0.99 |
| 49_G | 54_C | 1.283 | 0.99 |
| 122_G | 129_G | 1.277 | 0.99 |
| 14_C | 94_A | 1.272 | 0.99 |
| 86_S | 93_V | 1.252 | 0.99 |
| 2_G | 6_L | 1.220 | 0.98 |
| 134_V | 138_W | 1.211 | 0.98 |
| 16_V | 123_V | 1.209 | 0.98 |
| 21_L | 171_T | 1.209 | 0.98 |
| 94_A | 124_L | 1.202 | 0.98 |
| 165_Y | 169_A | 1.174 | 0.98 |
| 137_C | 168_W | 1.174 | 0.98 |
| 78_Q | 82_A | 1.167 | 0.97 |
| 85_V | 89_L | 1.165 | 0.97 |
| 51_W | 93_V | 1.155 | 0.97 |
| 129_G | 180_L | 1.154 | 0.97 |
| 14_C | 125_Y | 1.135 | 0.97 |
| 94_A | 119_L | 1.135 | 0.97 |
| 17_G | 174_L | 1.133 | 0.97 |
| 84_T | 102_A | 1.132 | 0.97 |
| 56_V | 62_M | 1.119 | 0.96 |
| 108_V | 117_V | 1.109 | 0.96 |
| 137_C | 140_A | 1.108 | 0.96 |
| 179_C | 183_C | 1.095 | 0.96 |
| 160_L | 168_W | 1.093 | 0.96 |
| 32_V | 47_W | 1.088 | 0.96 |
| 153_P | 156_Q | 1.088 | 0.96 |
| 17_G | 178_G | 1.077 | 0.95 |
| 21_L | 132_A | 1.075 | 0.95 |
| 148_Y | 151_S | 1.069 | 0.95 |
| 164_L | 168_W | 1.066 | 0.95 |
| 102_A | 105_T | 1.065 | 0.95 |
| 132_A | 171_T | 1.064 | 0.95 |
| 61_H | 68_D | 1.058 | 0.95 |
| 28_P | 163_A | 1.041 | 0.94 |
| 144_V | 147_F | 1.035 | 0.94 |
| 132_A | 136_L | 1.032 | 0.94 |
| 130_L | 134_V | 1.030 | 0.94 |
| 60_G | 63_Q | 1.028 | 0.94 |
| 101_G | 121_G | 1.022 | 0.93 |
| 118_A | 121_G | 1.018 | 0.93 |
| 165_Y | 168_W | 1.015 | 0.93 |
| 7_E | 118_A | 1.008 | 0.93 |
| 138_W | 167_G | 1.006 | 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 | |
| 3x29A | 2 | 0.8789 | 100 | 0.132 | Contact Map |
| 4p79A | 1 | 0.9263 | 100 | 0.16 | Contact Map |
| 2zxeG | 1 | 0.2053 | 7.4 | 0.94 | Contact Map |
| 2jo1A | 1 | 0.2263 | 7.3 | 0.94 | Contact Map |
| 2jp3A | 1 | 0.2316 | 5 | 0.944 | Contact Map |
| 1fftB | 2 | 0.2421 | 4.8 | 0.945 | Contact Map |
| 1iijA | 1 | 0.1842 | 4.4 | 0.946 | Contact Map |
| 1nkzA | 3 | 0.2263 | 4.1 | 0.946 | Contact Map |
| 3j1zP | 2 | 0.6158 | 4.1 | 0.946 | Contact Map |
| 4jc95 | 14 | 0.1789 | 3.5 | 0.948 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)