| QWQ |
| ID: | 1446556897 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 119 (101) | ||
| Sequences: | 777 (434.7) | ||
| Seq/Len: | 7.693 | ||
| Nf(neff/√len): | 43.3 |
HHblits Results: (2015_06)
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: 7.693).
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 |
| 46_K | 53_T | 2.871 | 1.00 |
| 46_K | 76_S | 2.578 | 1.00 |
| 84_L | 105_L | 2.408 | 1.00 |
| 79_I | 115_V | 2.360 | 1.00 |
| 103_D | 107_K | 2.032 | 1.00 |
| 38_E | 109_L | 1.835 | 1.00 |
| 61_S | 64_A | 1.828 | 1.00 |
| 97_I | 101_I | 1.742 | 1.00 |
| 28_N | 90_R | 1.649 | 1.00 |
| 45_S | 52_N | 1.636 | 1.00 |
| 39_M | 115_V | 1.571 | 1.00 |
| 78_M | 87_N | 1.536 | 1.00 |
| 89_D | 92_V | 1.496 | 0.99 |
| 37_G | 41_Q | 1.494 | 0.99 |
| 70_Q | 107_K | 1.422 | 0.99 |
| 77_L | 84_L | 1.339 | 0.99 |
| 17_I | 106_T | 1.322 | 0.98 |
| 67_I | 113_E | 1.264 | 0.98 |
| 53_T | 76_S | 1.251 | 0.97 |
| 53_T | 57_L | 1.247 | 0.97 |
| 18_H | 34_S | 1.232 | 0.97 |
| 80_G | 83_F | 1.180 | 0.96 |
| 27_E | 87_N | 1.171 | 0.96 |
| 61_S | 69_L | 1.145 | 0.95 |
| 26_N | 31_K | 1.137 | 0.95 |
| 22_L | 78_M | 1.126 | 0.94 |
| 78_M | 83_F | 1.107 | 0.94 |
| 71_C | 96_S | 1.100 | 0.94 |
| 17_I | 34_S | 1.094 | 0.93 |
| 32_F | 98_K | 1.090 | 0.93 |
| 114_D | 117_S | 1.084 | 0.93 |
| 77_L | 87_N | 1.075 | 0.92 |
| 65_Q | 117_S | 1.073 | 0.92 |
| 44_G | 52_N | 1.060 | 0.92 |
| 56_N | 59_N | 1.059 | 0.92 |
| 105_L | 109_L | 1.057 | 0.92 |
| 59_N | 65_Q | 1.056 | 0.92 |
| 45_S | 117_S | 1.054 | 0.91 |
| 74_V | 86_I | 1.053 | 0.91 |
| 106_T | 110_A | 1.052 | 0.91 |
| 56_N | 89_D | 1.051 | 0.91 |
| 20_K | 71_C | 1.048 | 0.91 |
| 89_D | 119_E | 1.045 | 0.91 |
| 65_Q | 101_I | 1.040 | 0.91 |
| 22_L | 103_D | 1.038 | 0.91 |
| 18_H | 106_T | 1.029 | 0.90 |
| 22_L | 31_K | 1.016 | 0.89 |
| 13_S | 115_V | 1.008 | 0.89 |
| 29_A | 83_F | 1.007 | 0.89 |
| 35_T | 106_T | 1.004 | 0.89 |
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 | |
| 2ltmA | 1 | 0.8908 | 100 | 0.061 | Contact Map |
| 2ltlA | 1 | 0.9412 | 100 | 0.088 | Contact Map |
| 2k1hA | 1 | 0.7227 | 99.9 | 0.191 | Contact Map |
| 1pqxA | 1 | 0.7647 | 99.9 | 0.191 | Contact Map |
| 2ru9A | 1 | 0.5546 | 32.1 | 0.898 | Contact Map |
| 4qn8A | 3 | 0.8824 | 12.9 | 0.915 | Contact Map |
| 4n8nA | 4 | 0.5546 | 8 | 0.923 | Contact Map |
| 4kt0D | 1 | 0.3277 | 7.6 | 0.923 | Contact Map |
| 1jb0D | 1 | 0.3361 | 7.6 | 0.923 | Contact Map |
| 1dc1A | 2 | 0.8655 | 7.3 | 0.924 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)