| WYL domain |
| ID: | 1379704736 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 132 (132) | ||
| Sequences: | 658 (521.4) | ||
| Seq/Len: | 4.985 | ||
| Nf(neff/√len): | 45.4 |
HHblits Results: (2013_03)
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: 4.985).
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_S | 104_D | 3.074 | 1.00 |
| 75_P | 110_D | 2.677 | 1.00 |
| 34_A | 37_T | 2.628 | 1.00 |
| 69_F | 105_L | 2.461 | 1.00 |
| 44_V | 53_G | 2.188 | 1.00 |
| 26_F | 98_V | 2.170 | 1.00 |
| 77_L | 108_L | 2.140 | 1.00 |
| 75_P | 108_L | 2.132 | 1.00 |
| 26_F | 30_L | 2.131 | 1.00 |
| 20_P | 114_A | 2.097 | 1.00 |
| 69_F | 107_V | 2.086 | 1.00 |
| 2_E | 40_K | 1.938 | 1.00 |
| 69_F | 76_I | 1.807 | 1.00 |
| 10_A | 61_V | 1.779 | 1.00 |
| 10_A | 58_V | 1.779 | 1.00 |
| 13_R | 39_F | 1.701 | 1.00 |
| 67_R | 94_L | 1.699 | 1.00 |
| 113_G | 132_G | 1.662 | 0.99 |
| 14_L | 24_F | 1.636 | 0.99 |
| 80_H | 103_K | 1.629 | 0.99 |
| 5_H | 40_K | 1.534 | 0.99 |
| 74_L | 110_D | 1.505 | 0.99 |
| 27_N | 33_I | 1.471 | 0.98 |
| 79_R | 96_A | 1.455 | 0.98 |
| 15_D | 118_Q | 1.440 | 0.98 |
| 78_E | 106_K | 1.440 | 0.98 |
| 14_L | 61_V | 1.431 | 0.98 |
| 97_A | 103_K | 1.424 | 0.98 |
| 63_T | 90_K | 1.413 | 0.98 |
| 119_A | 128_F | 1.395 | 0.97 |
| 65_L | 117_I | 1.391 | 0.97 |
| 17_L | 29_A | 1.348 | 0.96 |
| 35_L | 54_V | 1.312 | 0.96 |
| 59_C | 95_D | 1.311 | 0.96 |
| 30_L | 98_V | 1.295 | 0.95 |
| 20_P | 23_P | 1.287 | 0.95 |
| 11_A | 119_A | 1.287 | 0.95 |
| 27_N | 58_V | 1.258 | 0.94 |
| 26_F | 62_S | 1.235 | 0.94 |
| 66_F | 70_F | 1.194 | 0.92 |
| 13_R | 37_T | 1.191 | 0.92 |
| 11_A | 126_L | 1.190 | 0.92 |
| 41_E | 52_T | 1.171 | 0.91 |
| 64_T | 68_A | 1.168 | 0.91 |
| 66_F | 105_L | 1.164 | 0.91 |
| 30_L | 33_I | 1.155 | 0.90 |
| 67_R | 90_K | 1.151 | 0.90 |
| 5_H | 8_R | 1.124 | 0.88 |
| 31_G | 38_G | 1.111 | 0.88 |
| 107_V | 117_I | 1.094 | 0.87 |
| 118_Q | 129_H | 1.091 | 0.86 |
| 9_L | 12_S | 1.089 | 0.86 |
| 117_I | 130_L | 1.075 | 0.85 |
| 43_Y | 50_T | 1.061 | 0.84 |
| 59_C | 79_R | 1.058 | 0.84 |
| 115_L | 130_L | 1.054 | 0.84 |
| 35_L | 41_E | 1.054 | 0.84 |
| 45_I | 50_T | 1.052 | 0.84 |
| 32_P | 100_Q | 1.051 | 0.83 |
| 17_L | 24_F | 1.044 | 0.83 |
| 39_F | 42_A | 1.034 | 0.82 |
| 45_I | 84_Y | 1.024 | 0.81 |
| 120_S | 129_H | 1.024 | 0.81 |
| 114_A | 131_F | 1.020 | 0.81 |
| 27_N | 31_G | 1.004 | 0.79 |
| 32_P | 101_P | 1.001 | 0.79 |
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 | |
| 2pn8A | 10 | 0.2727 | 13.4 | 0.945 | Contact Map |
| 4f82A | 2 | 0.3788 | 11.2 | 0.947 | Contact Map |
| 2f8aA | 2 | 0.2576 | 10.8 | 0.948 | Contact Map |
| 3irpX | 1 | 0.5606 | 8.9 | 0.95 | Contact Map |
| 4aslA | 1 | 0.2045 | 8.1 | 0.95 | Contact Map |
| 3gqnA | 1 | 0.3561 | 7.4 | 0.951 | Contact Map |
| 2i3yA | 1 | 0.2803 | 6 | 0.953 | Contact Map |
| 3gqhA | 3 | 0.3561 | 5.5 | 0.954 | Contact Map |
| 1m1sA | 1 | 0.3712 | 5.5 | 0.954 | Contact Map |
| 4nx1A | 2 | 0.2879 | 4.7 | 0.956 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)