| Tau_RDs |
| ID: | 1492621547 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 127 (126) | ||
| Sequences: | 245 (160.4) | ||
| Seq/Len: | 1.944 | ||
| Nf(neff/√len): | 14.3 |
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: 1.944).
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 |
| 82_L | 85_I | 2.123 | 0.99 |
| 11_K | 17_I | 2.013 | 0.99 |
| 77_S | 88_K | 1.828 | 0.98 |
| 51_K | 54_I | 1.816 | 0.98 |
| 9_D | 12_N | 1.675 | 0.95 |
| 119_H | 123_G | 1.623 | 0.94 |
| 111_I | 114_L | 1.559 | 0.93 |
| 17_I | 20_T | 1.487 | 0.90 |
| 121_P | 124_G | 1.477 | 0.90 |
| 8_P | 17_I | 1.475 | 0.90 |
| 77_S | 87_H | 1.392 | 0.86 |
| 26_Q | 33_Q | 1.385 | 0.85 |
| 47_K | 101_L | 1.372 | 0.85 |
| 51_K | 55_K | 1.347 | 0.83 |
| 20_T | 23_L | 1.329 | 0.82 |
| 80_G | 83_G | 1.324 | 0.82 |
| 50_S | 56_H | 1.308 | 0.81 |
| 34_I | 40_D | 1.305 | 0.80 |
| 33_Q | 64_Q | 1.287 | 0.79 |
| 96_V | 100_K | 1.271 | 0.78 |
| 78_K | 89_P | 1.266 | 0.78 |
| 82_L | 86_H | 1.263 | 0.77 |
| 17_I | 79_C | 1.252 | 0.76 |
| 8_P | 11_K | 1.252 | 0.76 |
| 84_N | 87_H | 1.248 | 0.76 |
| 25_H | 29_G | 1.239 | 0.75 |
| 119_H | 122_G | 1.228 | 0.74 |
| 32_V | 37_K | 1.226 | 0.74 |
| 48_C | 79_C | 1.222 | 0.74 |
| 117_I | 125_N | 1.215 | 0.73 |
| 119_H | 124_G | 1.205 | 0.72 |
| 36_N | 67_Y | 1.195 | 0.72 |
| 73_S | 79_C | 1.183 | 0.70 |
| 81_S | 84_N | 1.175 | 0.70 |
| 112_G | 115_D | 1.160 | 0.68 |
| 49_G | 59_G | 1.155 | 0.68 |
| 94_V | 108_Q | 1.153 | 0.68 |
| 34_I | 38_K | 1.151 | 0.67 |
| 78_K | 88_K | 1.150 | 0.67 |
| 33_Q | 42_S | 1.144 | 0.67 |
| 65_I | 84_N | 1.131 | 0.65 |
| 16_K | 27_P | 1.128 | 0.65 |
| 23_L | 39_L | 1.124 | 0.65 |
| 14_K | 17_I | 1.121 | 0.64 |
| 99_E | 107_V | 1.113 | 0.64 |
| 17_I | 48_C | 1.112 | 0.64 |
| 84_N | 89_P | 1.106 | 0.63 |
| 81_S | 89_P | 1.093 | 0.62 |
| 110_K | 115_D | 1.090 | 0.61 |
| 3_A | 9_D | 1.088 | 0.61 |
| 8_P | 14_K | 1.086 | 0.61 |
| 103_F | 107_V | 1.082 | 0.60 |
| 20_T | 24_K | 1.076 | 0.60 |
| 117_I | 120_V | 1.076 | 0.60 |
| 116_N | 123_G | 1.072 | 0.59 |
| 42_S | 48_C | 1.072 | 0.59 |
| 9_D | 13_V | 1.067 | 0.59 |
| 5_V | 10_L | 1.066 | 0.59 |
| 113_S | 124_G | 1.053 | 0.57 |
| 22_N | 30_G | 1.051 | 0.57 |
| 112_G | 116_N | 1.050 | 0.57 |
| 78_K | 81_S | 1.048 | 0.57 |
| 93_Q | 110_K | 1.043 | 0.56 |
| 17_I | 26_Q | 1.037 | 0.56 |
| 114_L | 117_I | 1.018 | 0.53 |
| 49_G | 52_D | 1.016 | 0.53 |
| 113_S | 116_N | 1.014 | 0.53 |
| 58_P | 61_G | 1.010 | 0.53 |
| 44_V | 62_S | 1.009 | 0.52 |
| 72_L | 79_C | 1.008 | 0.52 |
| 20_T | 26_Q | 1.002 | 0.52 |
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 | |
| 2mz7A | 1 | 0 | 99.8 | 0.644 | Contact Map |
| 2lmkA | 1 | 0.189 | 4 | 0.959 | Contact Map |
| 3j7aL | 1 | 0.5276 | 2.2 | 0.964 | Contact Map |
| 3j38I | 1 | 0.5354 | 2.1 | 0.965 | Contact Map |
| 3zey5 | 1 | 0.5354 | 1.8 | 0.966 | Contact Map |
| 4w23I | 1 | 0.5354 | 1.8 | 0.966 | Contact Map |
| 3dcgE | 2 | 0.1339 | 1.5 | 0.968 | Contact Map |
| 3j60I | 1 | 0 | 1.5 | 0.968 | Contact Map |
| 2kcoA | 1 | 0.5512 | 1.5 | 0.968 | Contact Map |
| 1kxpD | 1 | 0.3307 | 1.5 | 0.968 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)