| 107610861084_10901074108610771081_1084107210841099 |
| ID: | 1418178649 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 217 (214) | ||
| Sequences: | 5844 (3959) | ||
| Seq/Len: | 27.308 | ||
| Nf(neff/√len): | 270.6 |
Jackhmmer Results: (2014_04_16)
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: 27.308).
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 |
| 64_K | 91_E | 4.450 | 1.00 |
| 24_T | 93_E | 4.097 | 1.00 |
| 177_F | 202_H | 3.817 | 1.00 |
| 149_L | 152_A | 3.503 | 1.00 |
| 133_E | 204_R | 2.957 | 1.00 |
| 19_W | 56_K | 2.548 | 1.00 |
| 57_E | 61_N | 2.497 | 1.00 |
| 34_S | 37_E | 2.467 | 1.00 |
| 180_V | 194_M | 2.458 | 1.00 |
| 148_R | 151_A | 2.378 | 1.00 |
| 170_D | 174_R | 2.254 | 1.00 |
| 45_L | 101_Y | 2.181 | 1.00 |
| 180_V | 198_V | 2.035 | 1.00 |
| 53_L | 101_Y | 1.976 | 1.00 |
| 56_K | 59_D | 1.825 | 1.00 |
| 147_V | 152_A | 1.820 | 1.00 |
| 128_E | 132_A | 1.796 | 1.00 |
| 24_T | 96_K | 1.784 | 1.00 |
| 16_L | 60_K | 1.779 | 1.00 |
| 128_E | 169_A | 1.747 | 1.00 |
| 67_Y | 71_E | 1.744 | 1.00 |
| 49_A | 105_L | 1.716 | 1.00 |
| 170_D | 209_R | 1.693 | 1.00 |
| 128_E | 135_Q | 1.675 | 1.00 |
| 165_D | 169_A | 1.610 | 1.00 |
| 190_Q | 193_Q | 1.563 | 1.00 |
| 199_Y | 203_K | 1.557 | 1.00 |
| 169_A | 172_M | 1.546 | 1.00 |
| 52_E | 56_K | 1.531 | 1.00 |
| 16_L | 56_K | 1.520 | 1.00 |
| 17_L | 93_E | 1.464 | 1.00 |
| 147_V | 151_A | 1.462 | 1.00 |
| 159_A | 212_Y | 1.445 | 1.00 |
| 166_L | 212_Y | 1.441 | 1.00 |
| 105_L | 109_Y | 1.419 | 1.00 |
| 41_L | 104_M | 1.385 | 0.99 |
| 13_V | 63_S | 1.384 | 0.99 |
| 210_T | 214_L | 1.383 | 0.99 |
| 196_R | 200_R | 1.367 | 0.99 |
| 23_H | 48_F | 1.332 | 0.99 |
| 157_Q | 160_G | 1.328 | 0.99 |
| 91_E | 95_K | 1.323 | 0.99 |
| 148_R | 152_A | 1.319 | 0.99 |
| 178_N | 182_T | 1.310 | 0.99 |
| 135_Q | 139_A | 1.302 | 0.99 |
| 5_R | 69_S | 1.293 | 0.99 |
| 48_F | 101_Y | 1.287 | 0.99 |
| 125_L | 129_A | 1.273 | 0.99 |
| 43_E | 46_S | 1.251 | 0.99 |
| 89_D | 93_E | 1.245 | 0.98 |
| 23_H | 52_E | 1.241 | 0.98 |
| 95_K | 99_D | 1.218 | 0.98 |
| 67_Y | 85_Y | 1.214 | 0.98 |
| 32_P | 41_L | 1.209 | 0.98 |
| 202_H | 206_V | 1.208 | 0.98 |
| 206_V | 210_T | 1.201 | 0.98 |
| 42_R | 109_Y | 1.197 | 0.98 |
| 49_A | 54_P | 1.197 | 0.98 |
| 32_P | 37_E | 1.194 | 0.98 |
| 96_K | 100_A | 1.191 | 0.98 |
| 99_D | 103_E | 1.188 | 0.98 |
| 23_H | 26_A | 1.185 | 0.98 |
| 206_V | 209_R | 1.177 | 0.98 |
| 57_E | 98_L | 1.172 | 0.98 |
| 171_S | 174_R | 1.172 | 0.98 |
| 181_Q | 185_D | 1.171 | 0.98 |
| 42_R | 108_A | 1.168 | 0.97 |
| 9_Y | 13_V | 1.147 | 0.97 |
| 81_V | 87_P | 1.140 | 0.97 |
| 92_K | 96_K | 1.140 | 0.97 |
| 39_R | 43_E | 1.139 | 0.97 |
| 11_E | 15_L | 1.127 | 0.97 |
| 68_Q | 72_G | 1.124 | 0.97 |
| 38_V | 108_A | 1.117 | 0.96 |
| 38_V | 41_L | 1.113 | 0.96 |
| 115_L | 118_L | 1.103 | 0.96 |
| 21_R | 93_E | 1.088 | 0.96 |
| 203_K | 207_A | 1.071 | 0.95 |
| 207_A | 211_E | 1.069 | 0.95 |
| 48_F | 53_L | 1.063 | 0.95 |
| 125_L | 180_V | 1.045 | 0.94 |
| 174_R | 178_N | 1.035 | 0.94 |
| 82_P | 85_Y | 1.034 | 0.94 |
| 28_E | 100_A | 1.033 | 0.94 |
| 58_A | 61_N | 1.032 | 0.94 |
| 177_F | 181_Q | 1.030 | 0.94 |
| 63_S | 66_I | 1.028 | 0.94 |
| 82_P | 86_H | 1.025 | 0.93 |
| 103_E | 106_M | 1.021 | 0.93 |
| 163_E | 212_Y | 1.020 | 0.93 |
| 156_P | 159_A | 1.019 | 0.93 |
| 103_E | 107_R | 1.017 | 0.93 |
| 9_Y | 67_Y | 1.013 | 0.93 |
| 198_V | 202_H | 1.012 | 0.93 |
| 38_V | 112_T | 1.008 | 0.93 |
| 122_V | 126_Q | 1.001 | 0.92 |
| 131_L | 135_Q | 1.000 | 0.92 |
| 31_F | 41_L | 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
- 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 | |
| 2odvA | 1 | 0.9816 | 99.8 | 0.212 | Contact Map |
| 1u5pA | 1 | 0.9539 | 99.8 | 0.231 | Contact Map |
| 1s35A | 1 | 0.9401 | 99.8 | 0.234 | Contact Map |
| 3fb2A | 2 | 0.9171 | 99.8 | 0.236 | Contact Map |
| 3edvA | 2 | 0.9631 | 99.8 | 0.245 | Contact Map |
| 1u4qA | 2 | 0.9539 | 99.8 | 0.249 | Contact Map |
| 3eduA | 1 | 0.8664 | 99.8 | 0.25 | Contact Map |
| 1cunA | 3 | 0.9447 | 99.8 | 0.257 | Contact Map |
| 1quuA | 1 | 0.9677 | 99.8 | 0.269 | Contact Map |
| 3kbtA | 2 | 0.8802 | 99.8 | 0.272 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)