| CRES |
| ID: | 1497050280 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 127 (112) | ||
| Sequences: | 789 (594.2) | ||
| Seq/Len: | 7.045 | ||
| Nf(neff/√len): | 56.1 |
HHblits Results: (2016_02)
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: 7.045).
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 |
| 104_C | 124_C | 3.455 | 1.00 |
| 55_K | 74_Q | 2.815 | 1.00 |
| 52_L | 78_S | 2.614 | 1.00 |
| 80_C | 90_C | 2.203 | 1.00 |
| 47_D | 77_R | 2.076 | 1.00 |
| 111_L | 116_E | 2.038 | 1.00 |
| 111_L | 114_N | 2.027 | 1.00 |
| 73_V | 106_F | 1.896 | 1.00 |
| 36_F | 119_L | 1.771 | 1.00 |
| 60_K | 70_Q | 1.694 | 1.00 |
| 22_S | 58_H | 1.667 | 1.00 |
| 68_E | 107_L | 1.650 | 1.00 |
| 22_S | 60_K | 1.648 | 1.00 |
| 18_N | 62_Q | 1.632 | 1.00 |
| 57_L | 103_S | 1.622 | 1.00 |
| 38_M | 75_I | 1.620 | 1.00 |
| 65_D | 111_L | 1.617 | 1.00 |
| 34_V | 71_I | 1.513 | 0.99 |
| 20_F | 70_Q | 1.490 | 0.99 |
| 58_H | 72_D | 1.477 | 0.99 |
| 38_M | 42_N | 1.476 | 0.99 |
| 76_S | 92_P | 1.464 | 0.99 |
| 30_V | 59_A | 1.446 | 0.99 |
| 61_L | 67_M | 1.418 | 0.99 |
| 23_I | 61_L | 1.400 | 0.99 |
| 40_E | 43_K | 1.385 | 0.99 |
| 41_Y | 106_F | 1.291 | 0.98 |
| 45_S | 82_K | 1.278 | 0.97 |
| 47_D | 82_K | 1.241 | 0.97 |
| 66_R | 113_W | 1.228 | 0.96 |
| 18_N | 66_R | 1.221 | 0.96 |
| 72_D | 103_S | 1.220 | 0.96 |
| 38_M | 50_V | 1.218 | 0.96 |
| 27_N | 59_A | 1.209 | 0.96 |
| 64_T | 68_E | 1.208 | 0.96 |
| 18_N | 64_T | 1.202 | 0.96 |
| 108_V | 113_W | 1.193 | 0.96 |
| 106_F | 119_L | 1.169 | 0.95 |
| 62_Q | 68_E | 1.167 | 0.95 |
| 109_G | 114_N | 1.162 | 0.95 |
| 52_L | 92_P | 1.159 | 0.95 |
| 63_I | 67_M | 1.147 | 0.94 |
| 54_D | 101_K | 1.121 | 0.93 |
| 53_V | 73_V | 1.121 | 0.93 |
| 57_L | 74_Q | 1.117 | 0.93 |
| 65_D | 68_E | 1.079 | 0.91 |
| 29_N | 33_C | 1.059 | 0.90 |
| 43_K | 47_D | 1.031 | 0.89 |
| 62_Q | 66_R | 1.027 | 0.89 |
| 109_G | 116_E | 1.014 | 0.88 |
| 75_I | 102_M | 1.010 | 0.87 |
| 110_A | 114_N | 1.007 | 0.87 |
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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 3gaxA | 2 | 0.8583 | 99.9 | 0.189 | Contact Map |
| 1roaA | 1 | 0.8661 | 99.9 | 0.19 | Contact Map |
| 4it7A | 4 | 0.8425 | 99.9 | 0.194 | Contact Map |
| 1yvbI | 1 | 0.874 | 99.9 | 0.202 | Contact Map |
| 4n6oB | 1 | 0.8583 | 99.9 | 0.206 | Contact Map |
| 2ch9A | 1 | 0.9606 | 99.9 | 0.211 | Contact Map |
| 3l0rA | 2 | 0.8346 | 99.9 | 0.24 | Contact Map |
| 3mwzA | 1 | 0.8819 | 99.9 | 0.247 | Contact Map |
| 2l4vA | 1 | 0.8268 | 99.8 | 0.345 | Contact Map |
| 3ul5A | 4 | 0.6535 | 99.8 | 0.366 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)