| T0786 |
| ID: | 1400603410 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 264 (228) | ||
| Sequences: | 662 (450.7) | ||
| Seq/Len: | 2.904 | ||
| Nf(neff/√len): | 29.8 |
HHblits Results: (2013_03)
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: 2.904).
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 |
| 27_C | 69_C | 3.945 | 1.00 |
| 150_N | 180_E | 3.812 | 1.00 |
| 27_C | 30_C | 3.664 | 1.00 |
| 174_D | 177_C | 3.594 | 1.00 |
| 149_K | 173_E | 3.357 | 1.00 |
| 82_R | 179_D | 3.295 | 1.00 |
| 30_C | 69_C | 2.932 | 1.00 |
| 245_I | 249_A | 2.645 | 1.00 |
| 63_L | 125_I | 2.559 | 1.00 |
| 148_Q | 184_Y | 2.546 | 1.00 |
| 141_N | 157_I | 2.498 | 1.00 |
| 81_M | 186_Q | 2.235 | 1.00 |
| 152_H | 180_E | 2.196 | 1.00 |
| 186_Q | 190_R | 2.163 | 1.00 |
| 207_F | 216_C | 2.118 | 1.00 |
| 187_Q | 191_Y | 2.098 | 1.00 |
| 61_T | 91_H | 2.048 | 1.00 |
| 168_F | 188_T | 2.037 | 1.00 |
| 137_V | 157_I | 1.982 | 1.00 |
| 157_I | 173_E | 1.979 | 1.00 |
| 86_R | 178_I | 1.975 | 1.00 |
| 86_R | 179_D | 1.940 | 0.99 |
| 77_T | 80_H | 1.914 | 0.99 |
| 82_R | 86_R | 1.873 | 0.99 |
| 89_I | 178_I | 1.823 | 0.99 |
| 150_N | 183_N | 1.791 | 0.99 |
| 73_I | 81_M | 1.753 | 0.99 |
| 181_L | 205_L | 1.676 | 0.98 |
| 152_H | 176_G | 1.675 | 0.98 |
| 137_V | 147_V | 1.588 | 0.97 |
| 85_I | 88_S | 1.573 | 0.97 |
| 189_V | 218_V | 1.567 | 0.97 |
| 68_N | 71_D | 1.509 | 0.96 |
| 154_E | 170_I | 1.504 | 0.95 |
| 92_W | 209_Y | 1.502 | 0.95 |
| 140_D | 146_I | 1.490 | 0.95 |
| 65_E | 108_K | 1.461 | 0.94 |
| 114_S | 204_N | 1.411 | 0.93 |
| 148_Q | 187_Q | 1.409 | 0.93 |
| 103_S | 132_N | 1.392 | 0.92 |
| 166_T | 243_V | 1.391 | 0.92 |
| 188_T | 192_I | 1.390 | 0.92 |
| 208_Y | 217_K | 1.385 | 0.92 |
| 196_F | 247_L | 1.350 | 0.91 |
| 166_T | 246_Q | 1.322 | 0.90 |
| 85_I | 185_I | 1.312 | 0.89 |
| 91_H | 125_I | 1.305 | 0.89 |
| 55_L | 127_G | 1.305 | 0.89 |
| 96_Q | 104_V | 1.296 | 0.88 |
| 209_Y | 214_I | 1.273 | 0.87 |
| 92_W | 207_F | 1.254 | 0.86 |
| 162_I | 170_I | 1.241 | 0.85 |
| 35_L | 227_L | 1.240 | 0.85 |
| 150_N | 184_Y | 1.240 | 0.85 |
| 160_R | 164_G | 1.213 | 0.83 |
| 87_F | 182_A | 1.208 | 0.83 |
| 185_I | 218_V | 1.199 | 0.82 |
| 40_A | 43_G | 1.198 | 0.82 |
| 95_L | 104_V | 1.191 | 0.82 |
| 55_L | 228_Y | 1.172 | 0.80 |
| 30_C | 54_T | 1.172 | 0.80 |
| 128_M | 231_Y | 1.151 | 0.79 |
| 187_Q | 190_R | 1.151 | 0.79 |
| 128_M | 225_S | 1.148 | 0.78 |
| 236_V | 243_V | 1.136 | 0.77 |
| 28_P | 53_P | 1.125 | 0.76 |
| 58_T | 250_Y | 1.123 | 0.76 |
| 92_W | 106_L | 1.118 | 0.76 |
| 135_D | 147_V | 1.114 | 0.75 |
| 180_E | 187_Q | 1.114 | 0.75 |
| 159_D | 171_I | 1.103 | 0.74 |
| 205_L | 216_C | 1.103 | 0.74 |
| 154_E | 207_F | 1.103 | 0.74 |
| 78_E | 186_Q | 1.092 | 0.73 |
| 192_I | 196_F | 1.089 | 0.73 |
| 51_K | 118_L | 1.085 | 0.73 |
| 47_W | 108_K | 1.080 | 0.72 |
| 185_I | 189_V | 1.077 | 0.72 |
| 138_E | 142_F | 1.076 | 0.72 |
| 74_A | 190_R | 1.074 | 0.72 |
| 47_W | 65_E | 1.070 | 0.71 |
| 192_I | 201_S | 1.053 | 0.69 |
| 246_Q | 249_A | 1.050 | 0.69 |
| 66_T | 69_C | 1.043 | 0.68 |
| 110_H | 200_C | 1.034 | 0.67 |
| 86_R | 175_I | 1.032 | 0.67 |
| 110_H | 116_G | 1.032 | 0.67 |
| 49_K | 59_F | 1.029 | 0.67 |
| 158_S | 188_T | 1.014 | 0.65 |
| 108_K | 121_A | 1.012 | 0.65 |
| 86_R | 89_I | 1.010 | 0.65 |
| 53_P | 66_T | 1.009 | 0.65 |
| 116_G | 204_N | 1.007 | 0.64 |
| 137_V | 141_N | 1.006 | 0.64 |
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 | |
| 1gupA | 4 | 0.9583 | 100 | 0.43 | Contact Map |
| 1z84A | 2 | 0.9205 | 100 | 0.464 | Contact Map |
| 4i5tA | 2 | 0.8902 | 99.9 | 0.737 | Contact Map |
| 2eo4A | 1 | 0.553 | 98.9 | 0.869 | Contact Map |
| 3lb5A | 4 | 0.4432 | 98.9 | 0.869 | Contact Map |
| 3o1cA | 1 | 0.4129 | 98.9 | 0.87 | Contact Map |
| 3o0mA | 2 | 0.4508 | 98.9 | 0.87 | Contact Map |
| 3ksvA | 1 | 0.4621 | 98.7 | 0.876 | Contact Map |
| 1y23A | 5 | 0.5227 | 98.7 | 0.876 | Contact Map |
| 3imiA | 4 | 0.5303 | 98.7 | 0.876 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)