| Chain 1 |
| ID: | 1450296152 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 214 (203) | ||
| Sequences: | 14930 (10185.3) | ||
| Seq/Len: | 73.547 | ||
| Nf(neff/√len): | 714.9 |
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: 73.547).
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 |
| 149_K | 195_E | 3.804 | 1.00 |
| 13_A | 78_L | 3.439 | 1.00 |
| 36_Y | 89_Q | 3.305 | 1.00 |
| 85_T | 103_K | 2.703 | 1.00 |
| 131_S | 180_T | 2.557 | 1.00 |
| 20_T | 74_T | 2.548 | 1.00 |
| 37_Q | 84_A | 2.500 | 1.00 |
| 14_S | 17_D | 2.437 | 1.00 |
| 18_R | 76_S | 2.387 | 1.00 |
| 18_R | 74_T | 2.384 | 1.00 |
| 20_T | 72_T | 2.331 | 1.00 |
| 131_S | 178_T | 2.329 | 1.00 |
| 150_V | 190_K | 2.326 | 1.00 |
| 125_L | 184_A | 2.320 | 1.00 |
| 19_V | 104_V | 2.300 | 1.00 |
| 138_N | 144_A | 2.277 | 1.00 |
| 61_R | 82_D | 2.230 | 1.00 |
| 149_K | 193_A | 2.120 | 1.00 |
| 140_Y | 144_A | 2.100 | 1.00 |
| 23_C | 88_C | 2.097 | 1.00 |
| 129_T | 180_T | 2.066 | 1.00 |
| 22_T | 72_T | 2.062 | 1.00 |
| 134_C | 194_C | 2.042 | 1.00 |
| 13_A | 19_V | 2.041 | 1.00 |
| 21_I | 104_V | 2.037 | 1.00 |
| 85_T | 101_G | 2.029 | 1.00 |
| 34_A | 91_H | 2.017 | 1.00 |
| 27_Q | 31_T | 1.996 | 1.00 |
| 34_A | 89_Q | 1.945 | 1.00 |
| 37_Q | 86_Y | 1.894 | 1.00 |
| 87_Y | 101_G | 1.894 | 1.00 |
| 133_V | 178_T | 1.862 | 1.00 |
| 92_Y | 95_P | 1.818 | 1.00 |
| 129_T | 182_S | 1.781 | 1.00 |
| 147_Q | 197_T | 1.756 | 1.00 |
| 197_T | 202_S | 1.754 | 1.00 |
| 147_Q | 154_L | 1.734 | 1.00 |
| 198_H | 201_L | 1.715 | 1.00 |
| 36_Y | 87_Y | 1.693 | 1.00 |
| 15_V | 80_P | 1.684 | 1.00 |
| 63_S | 76_S | 1.669 | 1.00 |
| 147_Q | 195_E | 1.663 | 1.00 |
| 25_A | 33_V | 1.642 | 1.00 |
| 35_W | 73_L | 1.575 | 1.00 |
| 145_K | 197_T | 1.568 | 1.00 |
| 151_D | 155_Q | 1.555 | 1.00 |
| 136_L | 146_V | 1.539 | 1.00 |
| 18_R | 77_S | 1.509 | 1.00 |
| 91_H | 96_P | 1.488 | 1.00 |
| 10_S | 105_E | 1.470 | 1.00 |
| 25_A | 90_Q | 1.468 | 1.00 |
| 125_L | 130_A | 1.455 | 1.00 |
| 136_L | 196_V | 1.451 | 1.00 |
| 130_A | 181_L | 1.442 | 1.00 |
| 135_L | 176_S | 1.419 | 1.00 |
| 195_E | 202_S | 1.405 | 0.99 |
| 150_V | 192_Y | 1.396 | 0.99 |
| 149_K | 154_L | 1.369 | 0.99 |
| 146_V | 177_S | 1.354 | 0.99 |
| 11_L | 19_V | 1.330 | 0.99 |
| 34_A | 43_A | 1.324 | 0.99 |
| 10_S | 103_K | 1.281 | 0.99 |
| 4_M | 7_S | 1.229 | 0.98 |
| 63_S | 74_T | 1.214 | 0.98 |
| 148_W | 177_S | 1.211 | 0.98 |
| 87_Y | 99_G | 1.208 | 0.98 |
| 24_R | 70_D | 1.193 | 0.98 |
| 38_Q | 85_T | 1.176 | 0.98 |
| 12_S | 105_E | 1.171 | 0.98 |
| 127_S | 186_Y | 1.170 | 0.97 |
| 33_V | 88_C | 1.170 | 0.97 |
| 83_F | 106_I | 1.170 | 0.97 |
| 132_V | 148_W | 1.159 | 0.97 |
| 129_T | 183_K | 1.149 | 0.97 |
| 6_Q | 24_R | 1.147 | 0.97 |
| 3_Q | 26_S | 1.146 | 0.97 |
| 116_F | 135_L | 1.142 | 0.97 |
| 65_S | 74_T | 1.137 | 0.97 |
| 21_I | 102_T | 1.131 | 0.97 |
| 16_G | 77_S | 1.127 | 0.97 |
| 8_P | 102_T | 1.125 | 0.97 |
| 22_T | 70_D | 1.117 | 0.96 |
| 19_V | 75_I | 1.115 | 0.96 |
| 152_N | 155_Q | 1.114 | 0.96 |
| 89_Q | 96_P | 1.109 | 0.96 |
| 12_S | 107_K | 1.108 | 0.96 |
| 134_C | 148_W | 1.107 | 0.96 |
| 146_V | 196_V | 1.096 | 0.96 |
| 195_E | 204_P | 1.089 | 0.96 |
| 38_Q | 87_Y | 1.079 | 0.95 |
| 18_R | 78_L | 1.078 | 0.95 |
| 10_S | 102_T | 1.070 | 0.95 |
| 19_V | 78_L | 1.069 | 0.95 |
| 150_V | 153_A | 1.062 | 0.95 |
| 193_A | 204_P | 1.059 | 0.95 |
| 36_Y | 43_A | 1.049 | 0.94 |
| 37_Q | 82_D | 1.045 | 0.94 |
| 114_S | 137_N | 1.027 | 0.94 |
| 181_L | 188_K | 1.018 | 0.93 |
| 139_F | 144_A | 1.013 | 0.93 |
| 130_A | 184_A | 1.011 | 0.93 |
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
- See coupling matrix (for protein design or mutagenesis)
- 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 | |
| 3sobL | 1 | 0.9953 | 99.9 | 0.079 | Contact Map |
| 3bkjL | 1 | 0.9953 | 99.9 | 0.091 | Contact Map |
| 4hbcL | 1 | 0.986 | 99.9 | 0.105 | Contact Map |
| 3d9aL | 1 | 0.9953 | 99.9 | 0.11 | Contact Map |
| 3r06A | 4 | 0.9953 | 99.9 | 0.113 | Contact Map |
| 4nzuL | 1 | 0.986 | 99.9 | 0.115 | Contact Map |
| 4q9qH | 2 | 1 | 99.9 | 0.122 | Contact Map |
| 3mj8L | 2 | 0.9626 | 99.9 | 0.123 | Contact Map |
| 2c1oA | 2 | 0.9907 | 99.9 | 0.127 | Contact Map |
| 1nfdE | 2 | 0.972 | 99.9 | 0.128 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)