| T0806 |
| ID: | 1423535122 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 258 (256) | ||
| Sequences: | 2256 (1560.8) | ||
| Seq/Len: | 8.812 | ||
| Nf(neff/√len): | 97.5 |
Jackhmmer Results: (2015_01_07)
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: 8.812).
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 |
| 30_N | 150_I | 3.992 | 1.00 |
| 52_I | 56_L | 3.082 | 1.00 |
| 92_Q | 95_T | 3.073 | 1.00 |
| 142_D | 145_Q | 2.802 | 1.00 |
| 241_D | 244_S | 2.801 | 1.00 |
| 100_D | 221_E | 2.623 | 1.00 |
| 81_L | 101_F | 2.509 | 1.00 |
| 60_N | 63_R | 2.503 | 1.00 |
| 97_S | 100_D | 2.483 | 1.00 |
| 149_D | 153_N | 2.442 | 1.00 |
| 104_A | 220_I | 2.333 | 1.00 |
| 3_I | 219_I | 2.312 | 1.00 |
| 4_L | 167_V | 2.267 | 1.00 |
| 217_R | 221_E | 2.259 | 1.00 |
| 10_T | 84_K | 2.253 | 1.00 |
| 226_K | 229_Q | 2.246 | 1.00 |
| 17_L | 77_R | 2.208 | 1.00 |
| 100_D | 223_R | 2.208 | 1.00 |
| 168_I | 219_I | 2.205 | 1.00 |
| 47_S | 54_D | 2.199 | 1.00 |
| 137_N | 140_G | 2.121 | 1.00 |
| 244_S | 253_K | 2.047 | 1.00 |
| 196_E | 255_Y | 2.040 | 1.00 |
| 246_S | 249_E | 2.011 | 1.00 |
| 241_D | 253_K | 1.976 | 1.00 |
| 96_F | 217_R | 1.974 | 1.00 |
| 187_E | 248_G | 1.901 | 1.00 |
| 192_V | 249_E | 1.899 | 1.00 |
| 96_F | 100_D | 1.871 | 1.00 |
| 228_E | 231_T | 1.846 | 1.00 |
| 151_I | 178_S | 1.844 | 1.00 |
| 38_A | 64_F | 1.842 | 1.00 |
| 103_F | 107_H | 1.840 | 1.00 |
| 13_Y | 82_A | 1.835 | 1.00 |
| 26_E | 154_K | 1.786 | 1.00 |
| 109_R | 158_A | 1.752 | 1.00 |
| 61_A | 65_H | 1.749 | 1.00 |
| 5_I | 216_S | 1.726 | 1.00 |
| 26_E | 158_A | 1.713 | 1.00 |
| 131_M | 178_S | 1.701 | 1.00 |
| 105_Q | 121_L | 1.668 | 1.00 |
| 62_A | 66_D | 1.645 | 1.00 |
| 31_S | 67_W | 1.583 | 1.00 |
| 194_L | 253_K | 1.551 | 1.00 |
| 214_L | 236_E | 1.537 | 1.00 |
| 141_K | 145_Q | 1.531 | 1.00 |
| 100_D | 220_I | 1.527 | 1.00 |
| 5_I | 108_L | 1.521 | 1.00 |
| 103_F | 220_I | 1.509 | 1.00 |
| 37_E | 135_L | 1.479 | 1.00 |
| 5_I | 87_V | 1.470 | 1.00 |
| 227_P | 250_L | 1.468 | 1.00 |
| 219_I | 230_L | 1.455 | 0.99 |
| 231_T | 250_L | 1.455 | 0.99 |
| 84_K | 94_E | 1.451 | 0.99 |
| 15_S | 77_R | 1.430 | 0.99 |
| 219_I | 224_L | 1.419 | 0.99 |
| 196_E | 201_F | 1.410 | 0.99 |
| 86_D | 206_F | 1.395 | 0.99 |
| 8_A | 11_L | 1.370 | 0.99 |
| 191_P | 250_L | 1.366 | 0.99 |
| 59_I | 63_R | 1.361 | 0.99 |
| 96_F | 104_A | 1.356 | 0.99 |
| 18_T | 81_L | 1.334 | 0.99 |
| 46_I | 52_I | 1.333 | 0.99 |
| 58_G | 62_A | 1.330 | 0.99 |
| 154_K | 157_E | 1.325 | 0.99 |
| 104_A | 216_S | 1.313 | 0.99 |
| 151_I | 179_V | 1.312 | 0.99 |
| 207_Y | 254_R | 1.304 | 0.99 |
| 75_N | 125_Q | 1.298 | 0.99 |
| 72_T | 75_N | 1.294 | 0.99 |
| 224_L | 229_Q | 1.271 | 0.98 |
| 90_G | 210_K | 1.265 | 0.98 |
| 96_F | 101_F | 1.257 | 0.98 |
| 4_L | 155_L | 1.252 | 0.98 |
| 148_G | 180_K | 1.246 | 0.98 |
| 27_L | 154_K | 1.244 | 0.98 |
| 117_V | 154_K | 1.240 | 0.98 |
| 208_A | 212_R | 1.237 | 0.98 |
| 99_D | 223_R | 1.218 | 0.98 |
| 33_Q | 146_F | 1.207 | 0.97 |
| 95_T | 217_R | 1.207 | 0.97 |
| 12_D | 84_K | 1.199 | 0.97 |
| 77_R | 82_A | 1.197 | 0.97 |
| 91_L | 216_S | 1.193 | 0.97 |
| 118_L | 124_M | 1.193 | 0.97 |
| 113_G | 131_M | 1.187 | 0.97 |
| 240_F | 250_L | 1.186 | 0.97 |
| 2_L | 109_R | 1.185 | 0.97 |
| 2_L | 165_N | 1.184 | 0.97 |
| 168_I | 191_P | 1.180 | 0.97 |
| 37_E | 41_L | 1.178 | 0.97 |
| 96_F | 221_E | 1.163 | 0.97 |
| 76_A | 123_L | 1.159 | 0.97 |
| 239_F | 255_Y | 1.156 | 0.96 |
| 32_Q | 36_H | 1.156 | 0.96 |
| 80_I | 91_L | 1.141 | 0.96 |
| 30_N | 146_F | 1.140 | 0.96 |
| 13_Y | 124_M | 1.129 | 0.96 |
| 34_L | 137_N | 1.120 | 0.96 |
| 52_I | 57_A | 1.118 | 0.95 |
| 166_V | 187_E | 1.116 | 0.95 |
| 156_N | 185_N | 1.113 | 0.95 |
| 221_E | 235_S | 1.109 | 0.95 |
| 28_L | 70_D | 1.095 | 0.95 |
| 47_S | 57_A | 1.093 | 0.95 |
| 43_P | 61_A | 1.086 | 0.94 |
| 225_T | 229_Q | 1.086 | 0.94 |
| 196_E | 199_G | 1.059 | 0.93 |
| 131_M | 174_E | 1.046 | 0.93 |
| 37_E | 138_A | 1.046 | 0.93 |
| 35_I | 64_F | 1.043 | 0.93 |
| 166_V | 227_P | 1.039 | 0.93 |
| 229_Q | 232_G | 1.030 | 0.92 |
| 216_S | 220_I | 1.029 | 0.92 |
| 144_Y | 177_K | 1.028 | 0.92 |
| 53_S | 56_L | 1.027 | 0.92 |
| 203_I | 208_A | 1.027 | 0.92 |
| 134_R | 142_D | 1.026 | 0.92 |
| 47_S | 52_I | 1.023 | 0.92 |
| 33_Q | 37_E | 1.023 | 0.92 |
| 12_D | 77_R | 1.019 | 0.92 |
| 43_P | 58_G | 1.018 | 0.92 |
| 22_Y | 73_P | 1.013 | 0.91 |
| 158_A | 162_Q | 1.013 | 0.91 |
| 95_T | 221_E | 1.013 | 0.91 |
| 201_F | 253_K | 1.011 | 0.91 |
| 247_N | 250_L | 1.006 | 0.91 |
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 | |
| 4ou0A | 1 | 0.2287 | 28.5 | 0.96 | Contact Map |
| 3c65A | 1 | 0.0349 | 27.3 | 0.961 | Contact Map |
| 4glxA | 1 | 0.3256 | 13.1 | 0.966 | Contact Map |
| 3eyiA | 2 | 0.2403 | 8.9 | 0.968 | Contact Map |
| 3sgiA | 1 | 0 | 8.4 | 0.969 | Contact Map |
| 2vqeB | 1 | 0.4729 | 7.6 | 0.969 | Contact Map |
| 4dztA | 1 | 0.2907 | 6.7 | 0.97 | Contact Map |
| 4pj0U | 2 | 0.3566 | 6.3 | 0.971 | Contact Map |
| 2duyA | 1 | 0.2481 | 5.9 | 0.971 | Contact Map |
| 1adrA | 1 | 0.2946 | 5.7 | 0.971 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)