| 2F53_D |
| ID: | 1487105356 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 193 (185) | ||
| Sequences: | 9747 (6697.9) | ||
| Seq/Len: | 52.686 | ||
| Nf(neff/√len): | 492.4 |
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: 52.686).
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 |
| 151_Q | 189_A | 3.977 | 1.00 |
| 14_V | 81_S | 3.823 | 1.00 |
| 37_F | 92_A | 2.787 | 1.00 |
| 20_L | 111_L | 2.781 | 1.00 |
| 21_V | 77_Y | 2.596 | 1.00 |
| 22_L | 111_L | 2.587 | 1.00 |
| 88_T | 110_S | 2.582 | 1.00 |
| 28_D | 32_Y | 2.427 | 1.00 |
| 19_N | 79_A | 2.418 | 1.00 |
| 62_R | 85_D | 2.399 | 1.00 |
| 15_P | 18_E | 2.364 | 1.00 |
| 19_N | 77_Y | 2.328 | 1.00 |
| 138_C | 188_C | 2.261 | 1.00 |
| 14_V | 20_L | 2.255 | 1.00 |
| 88_T | 108_G | 2.241 | 1.00 |
| 38_R | 87_A | 2.207 | 1.00 |
| 21_V | 75_T | 2.184 | 1.00 |
| 142_D | 147_T | 2.049 | 1.00 |
| 24_C | 91_C | 2.045 | 1.00 |
| 35_Q | 92_A | 1.964 | 1.00 |
| 151_Q | 187_A | 1.919 | 1.00 |
| 149_V | 191_A | 1.883 | 1.00 |
| 90_L | 108_G | 1.881 | 1.00 |
| 148_N | 191_A | 1.854 | 1.00 |
| 11_A | 110_S | 1.802 | 1.00 |
| 16_E | 83_P | 1.737 | 1.00 |
| 35_Q | 94_R | 1.699 | 1.00 |
| 149_V | 189_A | 1.697 | 1.00 |
| 152_S | 186_F | 1.678 | 1.00 |
| 66_S | 77_Y | 1.669 | 1.00 |
| 149_V | 156_D | 1.655 | 1.00 |
| 23_N | 75_T | 1.647 | 1.00 |
| 19_N | 80_A | 1.583 | 1.00 |
| 26_F | 34_L | 1.575 | 1.00 |
| 86_S | 113_V | 1.563 | 1.00 |
| 9_P | 109_T | 1.562 | 1.00 |
| 151_Q | 156_D | 1.551 | 1.00 |
| 39_Q | 90_L | 1.534 | 1.00 |
| 152_S | 184_S | 1.533 | 1.00 |
| 36_W | 76_L | 1.530 | 1.00 |
| 64_N | 77_Y | 1.524 | 1.00 |
| 24_C | 138_C | 1.513 | 1.00 |
| 147_T | 192_F | 1.505 | 1.00 |
| 135_K | 176_S | 1.491 | 1.00 |
| 26_F | 93_V | 1.468 | 1.00 |
| 13_S | 112_I | 1.432 | 1.00 |
| 12_L | 20_L | 1.427 | 1.00 |
| 45_L | 48_L | 1.406 | 0.99 |
| 37_F | 90_L | 1.387 | 0.99 |
| 140_F | 190_N | 1.385 | 0.99 |
| 5_V | 8_I | 1.368 | 0.99 |
| 153_K | 157_V | 1.368 | 0.99 |
| 184_S | 192_F | 1.368 | 0.99 |
| 160_T | 163_C | 1.303 | 0.99 |
| 13_S | 114_H | 1.298 | 0.99 |
| 38_R | 89_Y | 1.286 | 0.99 |
| 64_N | 79_A | 1.274 | 0.99 |
| 136_S | 186_F | 1.268 | 0.99 |
| 20_L | 81_S | 1.267 | 0.99 |
| 39_Q | 88_T | 1.258 | 0.99 |
| 138_C | 150_S | 1.246 | 0.98 |
| 136_S | 150_S | 1.240 | 0.98 |
| 23_N | 73_R | 1.228 | 0.98 |
| 22_L | 36_W | 1.224 | 0.98 |
| 38_R | 85_D | 1.207 | 0.98 |
| 15_P | 114_H | 1.188 | 0.98 |
| 81_S | 113_V | 1.182 | 0.98 |
| 143_F | 147_T | 1.174 | 0.98 |
| 170_M | 174_S | 1.159 | 0.97 |
| 153_K | 187_A | 1.157 | 0.97 |
| 142_D | 145_S | 1.150 | 0.97 |
| 11_A | 112_I | 1.143 | 0.97 |
| 162_K | 182_N | 1.139 | 0.97 |
| 25_S | 73_R | 1.137 | 0.97 |
| 17_G | 80_A | 1.136 | 0.97 |
| 153_K | 156_D | 1.136 | 0.97 |
| 81_S | 111_L | 1.110 | 0.96 |
| 155_S | 158_Y | 1.083 | 0.96 |
| 33_N | 94_R | 1.080 | 0.95 |
| 124_V | 128_R | 1.077 | 0.95 |
| 34_L | 91_C | 1.077 | 0.95 |
| 90_L | 106_G | 1.074 | 0.95 |
| 147_T | 190_N | 1.059 | 0.95 |
| 175_N | 178_V | 1.057 | 0.95 |
| 66_S | 73_R | 1.048 | 0.94 |
| 34_L | 74_S | 1.032 | 0.94 |
| 22_L | 109_T | 1.032 | 0.94 |
| 86_S | 144_D | 1.029 | 0.94 |
| 170_M | 173_K | 1.029 | 0.94 |
| 94_R | 102_I | 1.028 | 0.94 |
| 11_A | 109_T | 1.019 | 0.93 |
| 135_K | 138_C | 1.015 | 0.93 |
| 154_D | 157_V | 1.014 | 0.93 |
| 12_L | 23_N | 1.012 | 0.93 |
| 186_F | 192_F | 1.009 | 0.93 |
| 97_S | 101_Y | 1.009 | 0.93 |
| 22_L | 89_Y | 1.003 | 0.93 |
| 170_M | 176_S | 1.002 | 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
- 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 | |
| 2q86A | 2 | 0.9534 | 99.9 | 0.187 | Contact Map |
| 4wnqA | 2 | 0.9637 | 99.9 | 0.192 | Contact Map |
| 4ei6A | 2 | 0.9793 | 99.9 | 0.201 | Contact Map |
| 1ogaD | 1 | 0.9534 | 99.9 | 0.229 | Contact Map |
| 4imlH | 2 | 0.9689 | 99.9 | 0.229 | Contact Map |
| 4ndmB | 1 | 0.9585 | 99.9 | 0.232 | Contact Map |
| 3rgvA | 1 | 0.9637 | 99.9 | 0.234 | Contact Map |
| 3bkjL | 1 | 0.9534 | 99.9 | 0.234 | Contact Map |
| 2bnuA | 1 | 0.9845 | 99.9 | 0.236 | Contact Map |
| 1hxmA | 4 | 0.9585 | 99.8 | 0.237 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)