| INN HCs |
| ID: | 1494159818 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 229 (214) | ||
| Sequences: | 9448 (6294.1) | ||
| Seq/Len: | 44.150 | ||
| Nf(neff/√len): | 430.3 |
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: 44.150).
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 |
| 12_V | 86_L | 4.290 | 1.00 |
| 163_N | 205_N | 3.853 | 1.00 |
| 67_R | 90_D | 3.114 | 1.00 |
| 22_C | 96_C | 2.927 | 1.00 |
| 17_S | 84_N | 2.897 | 1.00 |
| 148_C | 204_C | 2.760 | 1.00 |
| 18_L | 117_V | 2.718 | 1.00 |
| 17_S | 82_Q | 2.642 | 1.00 |
| 13_Q | 16_R | 2.521 | 1.00 |
| 19_R | 82_Q | 2.517 | 1.00 |
| 20_L | 117_V | 2.515 | 1.00 |
| 38_R | 92_A | 2.493 | 1.00 |
| 93_V | 116_L | 2.359 | 1.00 |
| 145_A | 189_V | 2.349 | 1.00 |
| 159_T | 207_N | 2.316 | 1.00 |
| 12_V | 18_L | 2.299 | 1.00 |
| 145_A | 191_T | 2.235 | 1.00 |
| 154_F | 158_V | 2.230 | 1.00 |
| 37_V | 97_A | 2.183 | 1.00 |
| 152_D | 158_V | 2.100 | 1.00 |
| 150_V | 160_V | 2.041 | 1.00 |
| 95_Y | 114_G | 1.965 | 1.00 |
| 28_T | 32_Y | 1.935 | 1.00 |
| 164_S | 200_Q | 1.910 | 1.00 |
| 26_G | 32_Y | 1.906 | 1.00 |
| 93_V | 114_G | 1.890 | 1.00 |
| 19_R | 80_Y | 1.879 | 1.00 |
| 35_H | 97_A | 1.865 | 1.00 |
| 17_S | 85_S | 1.849 | 1.00 |
| 207_N | 212_N | 1.817 | 1.00 |
| 208_H | 211_S | 1.806 | 1.00 |
| 164_S | 202_Y | 1.787 | 1.00 |
| 138_S | 195_S | 1.773 | 1.00 |
| 71_S | 82_Q | 1.716 | 1.00 |
| 100_S | 103_S | 1.714 | 1.00 |
| 205_N | 214_K | 1.712 | 1.00 |
| 143_T | 193_P | 1.707 | 1.00 |
| 161_S | 205_N | 1.705 | 1.00 |
| 21_S | 80_Y | 1.697 | 1.00 |
| 147_G | 189_V | 1.664 | 1.00 |
| 14_P | 88_A | 1.627 | 1.00 |
| 23_A | 78_S | 1.602 | 1.00 |
| 165_G | 169_S | 1.590 | 1.00 |
| 139_T | 142_G | 1.580 | 1.00 |
| 162_W | 188_S | 1.573 | 1.00 |
| 143_T | 191_T | 1.572 | 1.00 |
| 99_V | 104_T | 1.531 | 1.00 |
| 160_V | 188_S | 1.505 | 1.00 |
| 35_H | 99_V | 1.505 | 1.00 |
| 161_S | 207_N | 1.498 | 1.00 |
| 163_N | 203_I | 1.497 | 1.00 |
| 20_L | 36_W | 1.496 | 1.00 |
| 149_L | 187_S | 1.494 | 1.00 |
| 163_N | 168_T | 1.452 | 1.00 |
| 69_T | 84_N | 1.422 | 1.00 |
| 13_Q | 120_S | 1.407 | 0.99 |
| 144_A | 192_V | 1.387 | 0.99 |
| 9_G | 116_L | 1.367 | 0.99 |
| 24_A | 34_M | 1.336 | 0.99 |
| 37_V | 95_Y | 1.329 | 0.99 |
| 21_S | 78_S | 1.329 | 0.99 |
| 146_L | 202_Y | 1.327 | 0.99 |
| 164_S | 198_G | 1.301 | 0.99 |
| 128_S | 151_K | 1.294 | 0.99 |
| 20_L | 115_T | 1.293 | 0.99 |
| 24_A | 79_L | 1.291 | 0.99 |
| 64_V | 68_F | 1.289 | 0.99 |
| 143_T | 194_S | 1.281 | 0.99 |
| 164_S | 167_L | 1.278 | 0.99 |
| 69_T | 82_Q | 1.274 | 0.99 |
| 38_R | 94_Y | 1.262 | 0.99 |
| 34_M | 79_L | 1.254 | 0.99 |
| 133_A | 215_V | 1.243 | 0.98 |
| 153_Y | 158_V | 1.215 | 0.98 |
| 203_I | 214_K | 1.202 | 0.98 |
| 68_F | 83_M | 1.173 | 0.98 |
| 11_L | 120_S | 1.168 | 0.97 |
| 192_V | 195_S | 1.163 | 0.97 |
| 36_W | 81_L | 1.158 | 0.97 |
| 129_V | 132_L | 1.155 | 0.97 |
| 162_W | 190_V | 1.152 | 0.97 |
| 10_G | 21_S | 1.149 | 0.97 |
| 161_S | 168_T | 1.147 | 0.97 |
| 138_S | 144_A | 1.123 | 0.97 |
| 10_G | 20_L | 1.113 | 0.96 |
| 83_M | 90_D | 1.109 | 0.96 |
| 86_L | 117_V | 1.106 | 0.96 |
| 11_L | 118_T | 1.101 | 0.96 |
| 158_V | 208_H | 1.095 | 0.96 |
| 166_A | 169_S | 1.092 | 0.96 |
| 7_S | 113_Q | 1.085 | 0.96 |
| 146_L | 162_W | 1.080 | 0.95 |
| 150_V | 154_F | 1.080 | 0.95 |
| 91_T | 116_L | 1.066 | 0.95 |
| 91_T | 119_V | 1.058 | 0.95 |
| 28_T | 100_S | 1.058 | 0.95 |
| 203_I | 216_D | 1.051 | 0.94 |
| 24_A | 98_K | 1.051 | 0.94 |
| 91_T | 118_T | 1.047 | 0.94 |
| 39_Q | 95_Y | 1.045 | 0.94 |
| 202_Y | 208_H | 1.035 | 0.94 |
| 165_G | 168_T | 1.033 | 0.94 |
| 130_F | 149_L | 1.026 | 0.94 |
| 22_C | 148_C | 1.024 | 0.93 |
| 39_Q | 93_V | 1.017 | 0.93 |
| 10_G | 18_L | 1.011 | 0.93 |
| 71_S | 78_S | 1.008 | 0.93 |
| 14_P | 121_S | 1.006 | 0.93 |
| 150_V | 188_S | 1.005 | 0.93 |
| 211_S | 214_K | 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
- 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 | |
| 3qhzH | 2 | 0.9563 | 100 | 0.203 | Contact Map |
| 4ydjH | 2 | 0 | 100 | 0.204 | Contact Map |
| 4jamH | 2 | 0.9694 | 100 | 0.207 | Contact Map |
| 3tv3H | 1 | 0.9563 | 99.9 | 0.216 | Contact Map |
| 4nzuH | 1 | 0.9563 | 99.9 | 0.221 | Contact Map |
| 3baeH | 1 | 0.9345 | 99.9 | 0.229 | Contact Map |
| 3sobH | 1 | 0.9389 | 99.9 | 0.23 | Contact Map |
| 1c1eH | 1 | 0.9563 | 99.9 | 0.231 | Contact Map |
| 3lizH | 1 | 0.9301 | 99.9 | 0.232 | Contact Map |
| 1deeB | 3 | 0.952 | 99.9 | 0.233 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)