| active site |
| ID: | 1493556776 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 285 (278) | ||
| Sequences: | 15741 (7692.4) | ||
| Seq/Len: | 56.622 | ||
| Nf(neff/√len): | 461.4 |
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: 56.622).
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 |
| 34_H | 109_D | 4.944 | 1.00 |
| 32_S | 35_Q | 4.557 | 1.00 |
| 92_Q | 126_K | 4.348 | 1.00 |
| 32_S | 36_D | 4.064 | 1.00 |
| 15_T | 25_E | 3.962 | 1.00 |
| 225_T | 272_E | 3.745 | 1.00 |
| 27_K | 106_Y | 3.297 | 1.00 |
| 33_L | 38_I | 3.256 | 1.00 |
| 33_L | 40_V | 3.209 | 1.00 |
| 49_T | 65_Y | 3.036 | 1.00 |
| 100_K | 130_Q | 2.755 | 1.00 |
| 27_K | 105_E | 2.707 | 1.00 |
| 103_V | 138_I | 2.596 | 1.00 |
| 30_V | 40_V | 2.552 | 1.00 |
| 23_I | 106_Y | 2.547 | 1.00 |
| 28_E | 32_S | 2.524 | 1.00 |
| 99_L | 127_A | 2.459 | 1.00 |
| 26_F | 30_V | 2.455 | 1.00 |
| 26_F | 42_M | 2.314 | 1.00 |
| 49_T | 84_I | 2.261 | 1.00 |
| 100_K | 134_I | 2.251 | 1.00 |
| 128_A | 132_H | 2.241 | 1.00 |
| 93_K | 97_D | 2.205 | 1.00 |
| 25_E | 28_E | 2.204 | 1.00 |
| 96_I | 126_K | 2.188 | 1.00 |
| 85_A | 88_R | 2.187 | 1.00 |
| 7_N | 98_S | 2.170 | 1.00 |
| 26_F | 108_V | 2.153 | 1.00 |
| 31_L | 35_Q | 2.131 | 1.00 |
| 24_K | 27_K | 2.057 | 1.00 |
| 52_T | 80_T | 2.029 | 1.00 |
| 29_M | 33_L | 2.006 | 1.00 |
| 7_N | 101_F | 2.001 | 1.00 |
| 100_K | 104_N | 2.000 | 1.00 |
| 69_D | 73_N | 1.983 | 1.00 |
| 41_N | 110_G | 1.952 | 1.00 |
| 8_V | 23_I | 1.942 | 1.00 |
| 224_V | 255_A | 1.869 | 1.00 |
| 46_Y | 98_S | 1.854 | 1.00 |
| 84_I | 91_V | 1.852 | 1.00 |
| 93_K | 130_Q | 1.842 | 1.00 |
| 7_N | 97_D | 1.833 | 1.00 |
| 46_Y | 95_I | 1.830 | 1.00 |
| 96_I | 130_Q | 1.773 | 1.00 |
| 23_I | 101_F | 1.753 | 1.00 |
| 101_F | 106_Y | 1.749 | 1.00 |
| 33_L | 36_D | 1.742 | 1.00 |
| 86_A | 95_I | 1.741 | 1.00 |
| 22_R | 25_E | 1.718 | 1.00 |
| 104_N | 134_I | 1.716 | 1.00 |
| 24_K | 28_E | 1.694 | 1.00 |
| 90_M | 93_K | 1.675 | 1.00 |
| 94_F | 97_D | 1.666 | 1.00 |
| 7_N | 94_F | 1.649 | 1.00 |
| 89_P | 93_K | 1.608 | 1.00 |
| 233_W | 252_D | 1.586 | 1.00 |
| 23_I | 27_K | 1.560 | 1.00 |
| 115_L | 118_L | 1.517 | 1.00 |
| 46_Y | 113_F | 1.513 | 1.00 |
| 223_Y | 226_S | 1.505 | 1.00 |
| 5_N | 8_V | 1.504 | 1.00 |
| 26_F | 29_M | 1.491 | 1.00 |
| 94_F | 98_S | 1.488 | 1.00 |
| 44_V | 99_L | 1.488 | 1.00 |
| 39_G | 109_D | 1.480 | 1.00 |
| 249_I | 253_E | 1.478 | 1.00 |
| 143_E | 228_D | 1.462 | 1.00 |
| 125_S | 163_Q | 1.448 | 1.00 |
| 101_F | 105_E | 1.417 | 1.00 |
| 139_A | 169_A | 1.410 | 1.00 |
| 126_K | 130_Q | 1.400 | 0.99 |
| 9_P | 26_F | 1.399 | 0.99 |
| 171_F | 267_F | 1.382 | 0.99 |
| 260_M | 266_P | 1.372 | 0.99 |
| 107_H | 135_D | 1.368 | 0.99 |
| 51_A | 80_T | 1.367 | 0.99 |
| 64_Y | 94_F | 1.365 | 0.99 |
| 221_I | 267_F | 1.355 | 0.99 |
| 172_N | 222_N | 1.353 | 0.99 |
| 57_F | 94_F | 1.352 | 0.99 |
| 114_D | 228_D | 1.345 | 0.99 |
| 128_A | 140_L | 1.327 | 0.99 |
| 44_V | 111_F | 1.307 | 0.99 |
| 15_T | 24_K | 1.307 | 0.99 |
| 27_K | 31_L | 1.288 | 0.99 |
| 256_Q | 272_E | 1.270 | 0.99 |
| 225_T | 232_L | 1.268 | 0.99 |
| 28_E | 31_L | 1.254 | 0.99 |
| 31_L | 34_H | 1.246 | 0.98 |
| 143_E | 227_H | 1.243 | 0.98 |
| 132_H | 168_V | 1.235 | 0.98 |
| 9_P | 102_W | 1.234 | 0.98 |
| 51_A | 82_N | 1.229 | 0.98 |
| 45_V | 48_H | 1.228 | 0.98 |
| 96_I | 127_A | 1.206 | 0.98 |
| 103_V | 135_D | 1.189 | 0.98 |
| 104_N | 135_D | 1.179 | 0.98 |
| 114_D | 227_H | 1.172 | 0.98 |
| 145_W | 229_N | 1.161 | 0.97 |
| 183_V | 258_I | 1.157 | 0.97 |
| 3_P | 6_Y | 1.155 | 0.97 |
| 42_M | 108_V | 1.149 | 0.97 |
| 114_D | 143_E | 1.145 | 0.97 |
| 141_Y | 267_F | 1.144 | 0.97 |
| 224_V | 259_V | 1.136 | 0.97 |
| 131_L | 138_I | 1.129 | 0.97 |
| 23_I | 105_E | 1.126 | 0.97 |
| 232_L | 236_I | 1.118 | 0.96 |
| 129_T | 133_A | 1.116 | 0.96 |
| 260_M | 268_M | 1.111 | 0.96 |
| 31_L | 107_H | 1.110 | 0.96 |
| 48_H | 227_H | 1.108 | 0.96 |
| 125_S | 162_A | 1.108 | 0.96 |
| 42_M | 102_W | 1.105 | 0.96 |
| 130_Q | 133_A | 1.092 | 0.96 |
| 257_A | 261_T | 1.090 | 0.96 |
| 99_L | 111_F | 1.084 | 0.96 |
| 126_K | 129_T | 1.080 | 0.95 |
| 43_D | 112_R | 1.075 | 0.95 |
| 179_L | 255_A | 1.063 | 0.95 |
| 47_N | 83_E | 1.063 | 0.95 |
| 41_N | 141_Y | 1.058 | 0.95 |
| 46_Y | 99_L | 1.057 | 0.95 |
| 98_S | 101_F | 1.043 | 0.94 |
| 99_L | 131_L | 1.038 | 0.94 |
| 112_R | 228_D | 1.038 | 0.94 |
| 243_D | 247_D | 1.030 | 0.94 |
| 100_K | 135_D | 1.030 | 0.94 |
| 206_V | 262_S | 1.029 | 0.94 |
| 130_Q | 134_I | 1.024 | 0.93 |
| 6_Y | 84_I | 1.017 | 0.93 |
| 48_H | 228_D | 1.017 | 0.93 |
| 41_N | 139_A | 1.014 | 0.93 |
| 252_D | 275_L | 1.007 | 0.93 |
| 61_V | 64_Y | 1.002 | 0.92 |
| 64_Y | 90_M | 1.002 | 0.92 |
| 119_L | 124_M | 1.001 | 0.92 |
| 10_E | 13_Y | 1.000 | 0.92 |
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 | |
| 2wanA | 1 | 0.9895 | 100 | 0.123 | Contact Map |
| 3wdhA | 1 | 0.9895 | 100 | 0.141 | Contact Map |
| 2e8yA | 2 | 0.993 | 100 | 0.148 | Contact Map |
| 3edfA | 2 | 0.9018 | 100 | 0.172 | Contact Map |
| 1ea9C | 2 | 0.8702 | 100 | 0.175 | Contact Map |
| 1j0hA | 2 | 0.8702 | 100 | 0.177 | Contact Map |
| 1wzlA | 2 | 0.8667 | 100 | 0.184 | Contact Map |
| 4e2oA | 1 | 0.8912 | 100 | 0.189 | Contact Map |
| 1wzaA | 1 | 0.8632 | 100 | 0.194 | Contact Map |
| 4aeeA | 2 | 0.8561 | 100 | 0.197 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)