| rand |
| ID: | 1701095053 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 188 (188) | ||
| Sequences: | 47481 (35148.9) | ||
| Seq/Len: | 252.559 | ||
| Nf(neff/√len): | 2563.5 |
HHblits Results: (2016_02)
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 |
| 31_V | 63_V | 4.518 | 1.00 |
| 121_Y | 168_S | 2.661 | 1.00 |
| 21_Y | 25_M | 2.515 | 1.00 |
| 34_A | 56_L | 2.390 | 1.00 |
| 2_I | 29_V | 2.275 | 1.00 |
| 18_A | 22_C | 2.217 | 1.00 |
| 147_V | 151_D | 2.150 | 1.00 |
| 125_G | 165_Y | 2.022 | 1.00 |
| 47_F | 52_N | 1.975 | 1.00 |
| 46_F | 52_N | 1.969 | 1.00 |
| 136_N | 139_M | 1.955 | 1.00 |
| 24_Y | 28_T | 1.949 | 1.00 |
| 17_T | 21_Y | 1.905 | 1.00 |
| 115_M | 119_F | 1.904 | 1.00 |
| 58_I | 61_L | 1.896 | 1.00 |
| 5_L | 26_F | 1.889 | 1.00 |
| 144_L | 169_F | 1.882 | 1.00 |
| 126_V | 129_F | 1.804 | 1.00 |
| 34_A | 59_V | 1.789 | 1.00 |
| 20_K | 24_Y | 1.706 | 1.00 |
| 27_T | 62_S | 1.671 | 1.00 |
| 44_R | 47_F | 1.640 | 1.00 |
| 44_R | 48_K | 1.640 | 1.00 |
| 45_R | 48_K | 1.628 | 1.00 |
| 18_A | 21_Y | 1.622 | 1.00 |
| 33_E | 37_K | 1.622 | 1.00 |
| 11_S | 119_F | 1.601 | 1.00 |
| 27_T | 31_V | 1.592 | 1.00 |
| 34_A | 37_K | 1.575 | 1.00 |
| 151_D | 154_N | 1.522 | 1.00 |
| 9_T | 22_C | 1.516 | 1.00 |
| 46_F | 49_D | 1.498 | 1.00 |
| 125_G | 129_F | 1.459 | 1.00 |
| 31_V | 59_V | 1.457 | 1.00 |
| 152_N | 155_G | 1.456 | 1.00 |
| 135_E | 139_M | 1.443 | 1.00 |
| 57_A | 61_L | 1.438 | 1.00 |
| 119_F | 123_A | 1.409 | 1.00 |
| 122_A | 125_G | 1.407 | 0.99 |
| 21_Y | 24_Y | 1.399 | 0.99 |
| 121_Y | 125_G | 1.390 | 0.99 |
| 160_T | 163_D | 1.354 | 0.99 |
| 115_M | 118_F | 1.345 | 0.99 |
| 34_A | 46_F | 1.310 | 0.99 |
| 35_V | 39_V | 1.292 | 0.99 |
| 146_Q | 151_D | 1.273 | 0.99 |
| 148_S | 151_D | 1.257 | 0.99 |
| 70_T | 73_R | 1.255 | 0.99 |
| 6_N | 10_M | 1.255 | 0.99 |
| 25_M | 29_V | 1.244 | 0.98 |
| 142_L | 146_Q | 1.237 | 0.98 |
| 34_A | 52_N | 1.234 | 0.98 |
| 13_Y | 16_P | 1.234 | 0.98 |
| 54_L | 58_I | 1.224 | 0.98 |
| 8_V | 12_L | 1.216 | 0.98 |
| 119_F | 122_A | 1.213 | 0.98 |
| 147_V | 153_W | 1.213 | 0.98 |
| 47_F | 50_R | 1.199 | 0.98 |
| 118_F | 122_A | 1.198 | 0.98 |
| 160_T | 164_C | 1.196 | 0.98 |
| 39_V | 43_L | 1.193 | 0.98 |
| 6_N | 26_F | 1.193 | 0.98 |
| 154_N | 158_K | 1.190 | 0.98 |
| 45_R | 49_D | 1.182 | 0.98 |
| 53_Q | 57_A | 1.155 | 0.97 |
| 76_R | 79_R | 1.154 | 0.97 |
| 7_V | 11_S | 1.151 | 0.97 |
| 34_A | 38_L | 1.144 | 0.97 |
| 169_F | 173_A | 1.136 | 0.97 |
| 161_L | 164_C | 1.133 | 0.97 |
| 42_G | 45_R | 1.127 | 0.97 |
| 24_Y | 66_I | 1.125 | 0.97 |
| 143_T | 147_V | 1.122 | 0.97 |
| 37_K | 52_N | 1.116 | 0.96 |
| 149_T | 152_N | 1.112 | 0.96 |
| 17_T | 20_K | 1.106 | 0.96 |
| 134_F | 140_A | 1.102 | 0.96 |
| 68_N | 72_I | 1.096 | 0.96 |
| 22_C | 26_F | 1.095 | 0.96 |
| 49_D | 52_N | 1.079 | 0.95 |
| 2_I | 26_F | 1.079 | 0.95 |
| 47_F | 53_Q | 1.072 | 0.95 |
| 115_M | 121_Y | 1.071 | 0.95 |
| 122_A | 140_A | 1.070 | 0.95 |
| 118_F | 169_F | 1.067 | 0.95 |
| 1_S | 5_L | 1.066 | 0.95 |
| 28_T | 32_L | 1.065 | 0.95 |
| 56_L | 60_L | 1.057 | 0.95 |
| 155_G | 159_D | 1.051 | 0.94 |
| 73_R | 76_R | 1.051 | 0.94 |
| 105_P | 109_N | 1.044 | 0.94 |
| 50_R | 53_Q | 1.037 | 0.94 |
| 123_A | 127_E | 1.036 | 0.94 |
| 38_L | 47_F | 1.031 | 0.94 |
| 37_K | 41_F | 1.030 | 0.94 |
| 27_T | 59_V | 1.024 | 0.93 |
| 156_I | 159_D | 1.024 | 0.93 |
| 146_Q | 154_N | 1.022 | 0.93 |
| 3_I | 6_N | 1.021 | 0.93 |
| 158_K | 161_L | 1.020 | 0.93 |
| 27_T | 63_V | 1.006 | 0.93 |
| 158_K | 162_R | 1.005 | 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
- 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 | |
| 3rvyA | 2 | 0.984 | 99.9 | 0.028 | Contact Map |
| 4bgnA | 2 | 0.9521 | 99.9 | 0.029 | Contact Map |
| 4dxwA | 4 | 0.9787 | 99.9 | 0.038 | Contact Map |
| 2r9rB | 2 | 1 | 99.9 | 0.055 | Contact Map |
| 3behA | 4 | 0.9894 | 99.8 | 0.109 | Contact Map |
| 3j9pD | 4 | 0.9043 | 99.8 | 0.133 | Contact Map |
| 1orqC | 1 | 0.9894 | 99.7 | 0.213 | Contact Map |
| 3j5pB | 4 | 0.9894 | 99.5 | 0.306 | Contact Map |
| 4ltoA | 4 | 0.4468 | 98.9 | 0.493 | Contact Map |
| 4cbcA | 4 | 0.4415 | 98.8 | 0.505 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)