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| ID: | 1445341908 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 228 (207) | ||
| Sequences: | 1401 (744) | ||
| Seq/Len: | 6.768 | ||
| Nf(neff/√len): | 51.7 |
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: 6.768).
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 |
| 91_S | 117_F | 4.340 | 1.00 |
| 90_K | 94_E | 3.195 | 1.00 |
| 92_Y | 97_K | 3.012 | 1.00 |
| 51_I | 72_L | 2.593 | 1.00 |
| 114_A | 150_L | 2.484 | 1.00 |
| 105_G | 108_E | 2.446 | 1.00 |
| 104_I | 112_K | 2.374 | 1.00 |
| 50_L | 54_F | 2.311 | 1.00 |
| 91_S | 95_G | 2.206 | 1.00 |
| 58_R | 69_N | 2.163 | 1.00 |
| 68_P | 71_I | 2.154 | 1.00 |
| 148_V | 153_L | 2.147 | 1.00 |
| 60_A | 173_Y | 2.100 | 1.00 |
| 52_V | 162_L | 2.073 | 1.00 |
| 97_K | 101_A | 2.031 | 1.00 |
| 131_A | 135_R | 2.023 | 1.00 |
| 126_R | 129_D | 1.998 | 1.00 |
| 85_E | 88_A | 1.993 | 1.00 |
| 72_L | 76_A | 1.989 | 1.00 |
| 118_K | 150_L | 1.986 | 1.00 |
| 50_L | 83_I | 1.950 | 1.00 |
| 53_V | 222_L | 1.858 | 1.00 |
| 46_S | 83_I | 1.793 | 1.00 |
| 29_I | 33_I | 1.789 | 1.00 |
| 122_L | 145_I | 1.713 | 1.00 |
| 96_I | 100_L | 1.704 | 1.00 |
| 133_F | 159_I | 1.695 | 1.00 |
| 87_V | 90_K | 1.652 | 1.00 |
| 50_L | 226_F | 1.651 | 1.00 |
| 150_L | 154_V | 1.640 | 1.00 |
| 139_L | 149_P | 1.639 | 1.00 |
| 122_L | 150_L | 1.625 | 1.00 |
| 36_L | 40_I | 1.600 | 1.00 |
| 94_E | 112_K | 1.591 | 1.00 |
| 54_F | 218_L | 1.590 | 1.00 |
| 128_K | 216_N | 1.555 | 0.99 |
| 33_I | 40_I | 1.548 | 0.99 |
| 220_Q | 224_E | 1.519 | 0.99 |
| 112_K | 115_K | 1.507 | 0.99 |
| 74_T | 158_M | 1.497 | 0.99 |
| 43_V | 158_M | 1.468 | 0.99 |
| 118_K | 153_L | 1.453 | 0.99 |
| 136_I | 223_V | 1.445 | 0.99 |
| 92_Y | 96_I | 1.438 | 0.99 |
| 97_K | 100_L | 1.430 | 0.99 |
| 56_F | 206_L | 1.412 | 0.99 |
| 108_E | 112_K | 1.398 | 0.99 |
| 25_L | 29_I | 1.395 | 0.99 |
| 134_Y | 137_R | 1.382 | 0.98 |
| 49_R | 226_F | 1.357 | 0.98 |
| 190_M | 199_M | 1.344 | 0.98 |
| 122_L | 153_L | 1.337 | 0.98 |
| 178_V | 182_V | 1.332 | 0.98 |
| 58_R | 67_P | 1.328 | 0.98 |
| 120_F | 157_F | 1.282 | 0.97 |
| 174_L | 178_V | 1.256 | 0.97 |
| 113_G | 116_P | 1.254 | 0.97 |
| 44_M | 117_F | 1.250 | 0.97 |
| 114_A | 118_K | 1.211 | 0.96 |
| 56_F | 63_T | 1.203 | 0.96 |
| 90_K | 119_D | 1.196 | 0.95 |
| 163_K | 167_E | 1.181 | 0.95 |
| 65_S | 198_T | 1.169 | 0.95 |
| 93_N | 97_K | 1.165 | 0.94 |
| 95_G | 113_G | 1.149 | 0.94 |
| 194_M | 201_S | 1.144 | 0.94 |
| 160_S | 164_T | 1.141 | 0.94 |
| 80_T | 88_A | 1.136 | 0.93 |
| 213_D | 216_N | 1.129 | 0.93 |
| 168_I | 222_L | 1.121 | 0.93 |
| 108_E | 111_I | 1.120 | 0.93 |
| 89_T | 151_T | 1.120 | 0.93 |
| 23_T | 26_N | 1.118 | 0.93 |
| 172_I | 212_V | 1.092 | 0.92 |
| 134_Y | 142_P | 1.086 | 0.91 |
| 173_Y | 177_L | 1.075 | 0.91 |
| 33_I | 36_L | 1.070 | 0.90 |
| 88_A | 96_I | 1.066 | 0.90 |
| 115_K | 118_K | 1.049 | 0.89 |
| 149_P | 152_V | 1.049 | 0.89 |
| 39_S | 42_F | 1.045 | 0.89 |
| 159_I | 219_V | 1.036 | 0.88 |
| 159_I | 216_N | 1.023 | 0.88 |
| 37_A | 196_P | 1.019 | 0.87 |
| 27_I | 172_I | 1.010 | 0.87 |
| 144_T | 147_D | 1.006 | 0.86 |
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 | |
| 1rh5B | 1 | 0.2193 | 6.3 | 0.973 | Contact Map |
| 2ww9B | 1 | 0.2632 | 6.1 | 0.973 | Contact Map |
| 4w252 | 1 | 0.2456 | 5.3 | 0.973 | Contact Map |
| 3jstA | 2 | 0.136 | 5.2 | 0.974 | Contact Map |
| 3hxaA | 8 | 0.1535 | 2.6 | 0.977 | Contact Map |
| 1m45B | 1 | 0.1096 | 2.6 | 0.977 | Contact Map |
| 1co4A | 1 | 0.0877 | 2.3 | 0.978 | Contact Map |
| 2f6mA | 2 | 0.2763 | 2 | 0.978 | Contact Map |
| 2mk9A | 2 | 0.0833 | 1.5 | 0.98 | Contact Map |
| 3lu9C | 2 | 0.1096 | 1.1 | 0.982 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)