| Eelco HEC1 |
| ID: | 1474025864 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 116 (114) | ||
| Sequences: | 449 (333.9) | ||
| Seq/Len: | 3.939 | ||
| Nf(neff/√len): | 31.3 |
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: 3.939).
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 |
| 7_L | 104_A | 4.125 | 1.00 |
| 42_S | 46_F | 2.196 | 1.00 |
| 6_P | 12_F | 2.131 | 1.00 |
| 27_N | 52_F | 2.081 | 1.00 |
| 3_D | 53_L | 1.999 | 1.00 |
| 10_K | 13_I | 1.859 | 1.00 |
| 92_T | 95_A | 1.818 | 1.00 |
| 50_F | 54_Y | 1.768 | 0.99 |
| 76_F | 105_A | 1.755 | 0.99 |
| 23_F | 56_F | 1.707 | 0.99 |
| 41_P | 99_W | 1.697 | 0.99 |
| 12_F | 16_C | 1.663 | 0.99 |
| 20_L | 110_I | 1.648 | 0.99 |
| 67_K | 70_E | 1.482 | 0.97 |
| 47_L | 68_F | 1.476 | 0.97 |
| 50_F | 76_F | 1.409 | 0.96 |
| 88_S | 113_I | 1.390 | 0.96 |
| 45_D | 72_V | 1.389 | 0.96 |
| 90_M | 98_T | 1.345 | 0.94 |
| 49_I | 85_L | 1.339 | 0.94 |
| 54_Y | 75_I | 1.273 | 0.92 |
| 38_L | 49_I | 1.270 | 0.92 |
| 11_A | 14_Q | 1.266 | 0.92 |
| 75_I | 79_L | 1.227 | 0.90 |
| 22_E | 112_C | 1.196 | 0.88 |
| 10_K | 77_K | 1.167 | 0.87 |
| 43_V | 102_I | 1.153 | 0.86 |
| 107_V | 111_D | 1.153 | 0.86 |
| 33_V | 64_P | 1.148 | 0.85 |
| 2_K | 92_T | 1.145 | 0.85 |
| 43_V | 94_G | 1.112 | 0.83 |
| 73_P | 91_Y | 1.110 | 0.83 |
| 25_T | 93_V | 1.108 | 0.83 |
| 107_V | 114_K | 1.107 | 0.83 |
| 19_Q | 107_V | 1.107 | 0.83 |
| 13_I | 107_V | 1.102 | 0.82 |
| 99_W | 103_V | 1.099 | 0.82 |
| 46_F | 105_A | 1.097 | 0.82 |
| 74_R | 80_G | 1.095 | 0.82 |
| 29_Y | 52_F | 1.069 | 0.79 |
| 24_L | 45_D | 1.068 | 0.79 |
| 112_C | 115_I | 1.064 | 0.79 |
| 61_Y | 69_E | 1.055 | 0.78 |
| 20_L | 112_C | 1.048 | 0.77 |
| 23_F | 113_I | 1.023 | 0.75 |
| 58_C | 112_C | 1.019 | 0.75 |
| 20_L | 42_S | 1.008 | 0.74 |
| 11_A | 101_H | 1.005 | 0.73 |
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 | |
| 2ve7A | 2 | 1 | 100 | 0.001 | Contact Map |
| 2igpA | 1 | 0.9828 | 100 | 0.011 | Contact Map |
| 4lvpA | 1 | 0.8793 | 71.6 | 0.893 | Contact Map |
| 2b1eA | 1 | 0.8276 | 21.8 | 0.923 | Contact Map |
| 2axiA | 1 | 0.1897 | 14.4 | 0.929 | Contact Map |
| 4qpiA | 1 | 0.7672 | 14.3 | 0.929 | Contact Map |
| 2lbcA | 1 | 0.8362 | 13.5 | 0.93 | Contact Map |
| 1zrtD | 2 | 0.5603 | 11 | 0.932 | Contact Map |
| 1vw4E | 1 | 0.6466 | 10.5 | 0.933 | Contact Map |
| 2mr9A | 1 | 0.3793 | 9.6 | 0.934 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)