| Cla007079-180 |
| ID: | 1434063314 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 291 (278) | ||
| Sequences: | 36020 (26467.6) | ||
| Seq/Len: | 129.568 | ||
| Nf(neff/√len): | 1587.4 |
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: 129.568).
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 |
| 143_N | 206_E | 3.993 | 1.00 |
| 196_D | 199_S | 3.653 | 1.00 |
| 196_D | 201_K | 3.372 | 1.00 |
| 105_N | 152_Y | 2.986 | 1.00 |
| 168_C | 173_N | 2.935 | 1.00 |
| 102_A | 242_L | 2.894 | 1.00 |
| 112_S | 140_Y | 2.869 | 1.00 |
| 250_E | 280_R | 2.828 | 1.00 |
| 102_A | 148_T | 2.821 | 1.00 |
| 252_K | 280_R | 2.812 | 1.00 |
| 115_K | 203_E | 2.779 | 1.00 |
| 48_R | 77_D | 2.734 | 1.00 |
| 175_P | 178_T | 2.667 | 1.00 |
| 166_N | 173_N | 2.660 | 1.00 |
| 142_Q | 239_G | 2.646 | 1.00 |
| 98_T | 238_V | 2.599 | 1.00 |
| 116_V | 144_V | 2.485 | 1.00 |
| 189_R | 198_T | 2.447 | 1.00 |
| 118_N | 122_T | 2.413 | 1.00 |
| 114_N | 118_N | 2.342 | 1.00 |
| 166_N | 176_A | 2.316 | 1.00 |
| 252_K | 278_L | 2.308 | 1.00 |
| 113_L | 117_K | 2.290 | 1.00 |
| 41_Q | 81_K | 2.272 | 1.00 |
| 117_K | 121_D | 2.225 | 1.00 |
| 47_H | 59_T | 2.081 | 1.00 |
| 105_N | 151_L | 2.053 | 1.00 |
| 227_A | 231_M | 2.019 | 1.00 |
| 145_I | 238_V | 1.983 | 1.00 |
| 45_D | 77_D | 1.969 | 1.00 |
| 128_R | 134_D | 1.914 | 1.00 |
| 117_K | 250_E | 1.897 | 1.00 |
| 116_V | 141_L | 1.874 | 1.00 |
| 41_Q | 45_D | 1.864 | 1.00 |
| 113_L | 250_E | 1.847 | 1.00 |
| 116_V | 246_I | 1.847 | 1.00 |
| 115_K | 140_Y | 1.840 | 1.00 |
| 245_L | 251_W | 1.823 | 1.00 |
| 163_S | 174_I | 1.822 | 1.00 |
| 109_H | 112_S | 1.820 | 1.00 |
| 185_W | 189_R | 1.794 | 1.00 |
| 102_A | 144_V | 1.778 | 1.00 |
| 114_N | 250_E | 1.762 | 1.00 |
| 99_I | 241_T | 1.720 | 1.00 |
| 168_C | 171_G | 1.703 | 1.00 |
| 105_N | 109_H | 1.653 | 1.00 |
| 41_Q | 77_D | 1.649 | 1.00 |
| 142_Q | 146_S | 1.625 | 1.00 |
| 131_D | 134_D | 1.620 | 1.00 |
| 45_D | 49_R | 1.600 | 1.00 |
| 146_S | 235_N | 1.572 | 1.00 |
| 102_A | 106_L | 1.569 | 1.00 |
| 114_N | 117_K | 1.522 | 1.00 |
| 46_E | 50_N | 1.492 | 1.00 |
| 143_N | 203_E | 1.476 | 1.00 |
| 62_S | 66_C | 1.452 | 1.00 |
| 151_L | 189_R | 1.450 | 1.00 |
| 144_V | 200_F | 1.414 | 1.00 |
| 42_N | 46_E | 1.409 | 1.00 |
| 76_T | 79_I | 1.408 | 1.00 |
| 120_L | 243_G | 1.403 | 0.99 |
| 31_S | 35_D | 1.389 | 0.99 |
| 191_P | 198_T | 1.382 | 0.99 |
| 103_M | 245_L | 1.380 | 0.99 |
| 107_L | 113_L | 1.379 | 0.99 |
| 112_S | 115_K | 1.378 | 0.99 |
| 105_N | 148_T | 1.375 | 0.99 |
| 117_K | 282_R | 1.374 | 0.99 |
| 162_L | 177_D | 1.369 | 0.99 |
| 104_S | 108_N | 1.364 | 0.99 |
| 45_D | 48_R | 1.363 | 0.99 |
| 166_N | 175_P | 1.355 | 0.99 |
| 49_R | 53_E | 1.354 | 0.99 |
| 148_T | 200_F | 1.353 | 0.99 |
| 38_S | 42_N | 1.350 | 0.99 |
| 191_P | 197_S | 1.342 | 0.99 |
| 112_S | 144_V | 1.334 | 0.99 |
| 117_K | 246_I | 1.327 | 0.99 |
| 188_Q | 218_F | 1.279 | 0.99 |
| 188_Q | 220_P | 1.275 | 0.99 |
| 144_V | 148_T | 1.273 | 0.99 |
| 140_Y | 203_E | 1.270 | 0.99 |
| 262_T | 272_V | 1.262 | 0.99 |
| 34_R | 38_S | 1.257 | 0.99 |
| 251_W | 279_C | 1.253 | 0.99 |
| 37_D | 41_Q | 1.252 | 0.99 |
| 51_E | 66_C | 1.248 | 0.99 |
| 43_L | 46_E | 1.248 | 0.99 |
| 149_L | 220_P | 1.247 | 0.99 |
| 121_D | 247_Q | 1.246 | 0.98 |
| 244_S | 247_Q | 1.241 | 0.98 |
| 112_S | 203_E | 1.234 | 0.98 |
| 195_E | 201_K | 1.229 | 0.98 |
| 120_L | 141_L | 1.227 | 0.98 |
| 106_L | 116_V | 1.202 | 0.98 |
| 115_K | 118_N | 1.200 | 0.98 |
| 59_T | 62_S | 1.195 | 0.98 |
| 27_K | 31_S | 1.188 | 0.98 |
| 119_E | 138_L | 1.187 | 0.98 |
| 24_Q | 28_R | 1.184 | 0.98 |
| 107_L | 251_W | 1.181 | 0.98 |
| 37_D | 81_K | 1.178 | 0.98 |
| 231_M | 235_N | 1.177 | 0.98 |
| 33_G | 37_D | 1.153 | 0.97 |
| 98_T | 154_A | 1.147 | 0.97 |
| 165_Q | 176_A | 1.146 | 0.97 |
| 162_L | 179_I | 1.129 | 0.97 |
| 116_V | 140_Y | 1.124 | 0.97 |
| 101_W | 152_Y | 1.123 | 0.97 |
| 174_I | 180_L | 1.121 | 0.97 |
| 113_L | 246_I | 1.113 | 0.96 |
| 47_H | 50_N | 1.111 | 0.96 |
| 193_V | 217_K | 1.111 | 0.96 |
| 121_D | 282_R | 1.110 | 0.96 |
| 120_L | 138_L | 1.109 | 0.96 |
| 214_N | 217_K | 1.108 | 0.96 |
| 244_S | 248_G | 1.104 | 0.96 |
| 78_E | 82_G | 1.102 | 0.96 |
| 146_S | 218_F | 1.098 | 0.96 |
| 47_H | 62_S | 1.095 | 0.96 |
| 254_V | 278_L | 1.088 | 0.96 |
| 123_K | 138_L | 1.087 | 0.96 |
| 134_D | 137_N | 1.086 | 0.96 |
| 135_I | 239_G | 1.084 | 0.96 |
| 75_Y | 79_I | 1.081 | 0.95 |
| 142_Q | 235_N | 1.076 | 0.95 |
| 109_H | 199_S | 1.074 | 0.95 |
| 106_L | 112_S | 1.066 | 0.95 |
| 107_L | 253_R | 1.060 | 0.95 |
| 191_P | 195_E | 1.055 | 0.95 |
| 209_G | 212_T | 1.054 | 0.95 |
| 110_P | 250_E | 1.054 | 0.95 |
| 46_E | 49_R | 1.053 | 0.95 |
| 77_D | 81_K | 1.045 | 0.94 |
| 158_L | 184_A | 1.041 | 0.94 |
| 28_R | 32_L | 1.039 | 0.94 |
| 124_I | 247_Q | 1.025 | 0.93 |
| 235_N | 239_G | 1.019 | 0.93 |
| 35_D | 38_S | 1.006 | 0.93 |
| 234_A | 238_V | 1.006 | 0.93 |
| 120_L | 247_Q | 1.005 | 0.93 |
| 163_S | 178_T | 1.003 | 0.93 |
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 | |
| 3tbgA | 4 | 0.9656 | 100 | 0.156 | Contact Map |
| 4r21A | 2 | 0.9141 | 100 | 0.156 | Contact Map |
| 4r1zA | 2 | 0.9656 | 100 | 0.165 | Contact Map |
| 3e6iA | 2 | 0.9656 | 100 | 0.167 | Contact Map |
| 1r9oA | 1 | 0.945 | 100 | 0.169 | Contact Map |
| 3pm0A | 1 | 0.9828 | 100 | 0.171 | Contact Map |
| 2fdvA | 4 | 0.9691 | 100 | 0.173 | Contact Map |
| 1po5A | 1 | 0.9656 | 100 | 0.173 | Contact Map |
| 3swzA | 4 | 0.9931 | 100 | 0.174 | Contact Map |
| 2hi4A | 1 | 0.9691 | 100 | 0.176 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)