| cb2 |
| ID: | 1515193096 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 360 (291) | ||
| Sequences: | 6680 (4280.2) | ||
| Seq/Len: | 22.955 | ||
| Nf(neff/√len): | 250.9 |
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: 22.955).
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 |
| 47_S | 84_S | 5.791 | 1.00 |
| 75_S | 158_W | 3.734 | 1.00 |
| 132_Y | 137_Y | 3.373 | 1.00 |
| 75_S | 123_S | 3.053 | 1.00 |
| 207_Y | 211_H | 2.968 | 1.00 |
| 106_F | 179_C | 2.569 | 1.00 |
| 111_G | 115_M | 2.478 | 1.00 |
| 210_G | 214_W | 2.429 | 1.00 |
| 126_L | 157_M | 2.332 | 1.00 |
| 204_G | 208_T | 2.258 | 1.00 |
| 202_F | 255_L | 2.253 | 1.00 |
| 64_L | 70_Y | 2.225 | 1.00 |
| 99_G | 102_S | 2.091 | 1.00 |
| 103_K | 107_L | 2.091 | 1.00 |
| 148_G | 152_V | 2.058 | 1.00 |
| 126_L | 153_T | 2.033 | 1.00 |
| 55_L | 74_G | 2.031 | 1.00 |
| 246_T | 302_R | 1.972 | 1.00 |
| 71_L | 154_L | 1.971 | 1.00 |
| 104_A | 108_L | 1.896 | 1.00 |
| 132_Y | 211_H | 1.891 | 1.00 |
| 258_W | 288_C | 1.886 | 1.00 |
| 253_V | 298_I | 1.881 | 1.00 |
| 77_A | 80_D | 1.856 | 1.00 |
| 58_I | 74_G | 1.844 | 1.00 |
| 55_L | 81_F | 1.829 | 1.00 |
| 137_Y | 140_S | 1.797 | 1.00 |
| 115_M | 162_A | 1.784 | 1.00 |
| 134_C | 138_P | 1.765 | 1.00 |
| 80_D | 295_N | 1.748 | 1.00 |
| 263_A | 267_H | 1.711 | 1.00 |
| 48_A | 81_F | 1.675 | 1.00 |
| 79_A | 119_A | 1.673 | 1.00 |
| 80_D | 120_S | 1.671 | 1.00 |
| 34_T | 38_V | 1.666 | 1.00 |
| 75_S | 154_L | 1.664 | 1.00 |
| 166_Y | 170_M | 1.656 | 1.00 |
| 111_G | 169_L | 1.642 | 1.00 |
| 290_I | 294_V | 1.628 | 1.00 |
| 52_V | 56_Y | 1.621 | 1.00 |
| 50_E | 293_M | 1.607 | 1.00 |
| 47_S | 293_M | 1.591 | 1.00 |
| 271_T | 275_D | 1.570 | 1.00 |
| 124_L | 205_I | 1.548 | 1.00 |
| 151_L | 155_G | 1.518 | 1.00 |
| 211_H | 214_W | 1.503 | 1.00 |
| 146_T | 149_R | 1.457 | 1.00 |
| 82_L | 116_T | 1.456 | 1.00 |
| 72_F | 150_A | 1.456 | 1.00 |
| 128_A | 208_T | 1.456 | 1.00 |
| 158_W | 296_P | 1.450 | 1.00 |
| 130_D | 134_C | 1.437 | 1.00 |
| 123_S | 158_W | 1.432 | 1.00 |
| 295_N | 299_Y | 1.418 | 1.00 |
| 125_L | 208_T | 1.417 | 1.00 |
| 61_S | 309_S | 1.413 | 1.00 |
| 249_L | 298_I | 1.382 | 0.99 |
| 148_G | 151_L | 1.375 | 0.99 |
| 133_L | 144_L | 1.356 | 0.99 |
| 129_I | 208_T | 1.354 | 0.99 |
| 211_H | 215_K | 1.353 | 0.99 |
| 56_Y | 313_C | 1.352 | 0.99 |
| 67_K | 70_Y | 1.333 | 0.99 |
| 102_S | 105_V | 1.331 | 0.99 |
| 168_P | 171_G | 1.322 | 0.99 |
| 121_V | 254_L | 1.301 | 0.99 |
| 253_V | 294_V | 1.295 | 0.99 |
| 72_F | 127_T | 1.291 | 0.99 |
| 152_V | 156_I | 1.287 | 0.99 |
| 44_G | 84_S | 1.286 | 0.99 |
| 264_L | 284_C | 1.285 | 0.99 |
| 206_I | 210_G | 1.280 | 0.99 |
| 249_L | 302_R | 1.279 | 0.99 |
| 214_W | 217_H | 1.276 | 0.99 |
| 119_A | 161_S | 1.269 | 0.99 |
| 79_A | 120_S | 1.263 | 0.99 |
| 57_L | 310_A | 1.262 | 0.99 |
| 48_A | 84_S | 1.259 | 0.99 |
| 132_Y | 136_R | 1.255 | 0.99 |
| 80_D | 291_N | 1.254 | 0.99 |
| 54_V | 296_P | 1.254 | 0.99 |
| 259_F | 263_A | 1.248 | 0.99 |
| 125_L | 205_I | 1.246 | 0.98 |
| 79_A | 158_W | 1.243 | 0.98 |
| 311_H | 315_A | 1.236 | 0.98 |
| 83_A | 292_S | 1.231 | 0.98 |
| 280_A | 284_C | 1.216 | 0.98 |
| 194_W | 198_I | 1.211 | 0.98 |
| 153_T | 157_M | 1.204 | 0.98 |
| 136_R | 215_K | 1.194 | 0.98 |
| 155_G | 159_V | 1.184 | 0.98 |
| 122_G | 160_L | 1.180 | 0.98 |
| 119_A | 158_W | 1.174 | 0.98 |
| 308_S | 311_H | 1.172 | 0.98 |
| 122_G | 201_L | 1.171 | 0.98 |
| 125_L | 204_G | 1.168 | 0.97 |
| 152_V | 155_G | 1.162 | 0.97 |
| 132_Y | 208_T | 1.155 | 0.97 |
| 115_M | 165_S | 1.153 | 0.97 |
| 46_L | 293_M | 1.153 | 0.97 |
| 37_A | 96_V | 1.145 | 0.97 |
| 73_I | 300_A | 1.137 | 0.97 |
| 133_L | 137_Y | 1.134 | 0.97 |
| 119_A | 123_S | 1.130 | 0.97 |
| 213_L | 244_A | 1.118 | 0.96 |
| 157_M | 161_S | 1.115 | 0.96 |
| 76_L | 123_S | 1.109 | 0.96 |
| 55_L | 78_G | 1.109 | 0.96 |
| 53_A | 57_L | 1.107 | 0.96 |
| 241_V | 245_K | 1.103 | 0.96 |
| 132_Y | 207_Y | 1.092 | 0.96 |
| 135_L | 138_P | 1.087 | 0.96 |
| 123_S | 154_L | 1.087 | 0.96 |
| 58_I | 64_L | 1.082 | 0.96 |
| 133_L | 141_Y | 1.075 | 0.95 |
| 84_S | 293_M | 1.075 | 0.95 |
| 120_S | 295_N | 1.070 | 0.95 |
| 60_S | 309_S | 1.070 | 0.95 |
| 147_R | 151_L | 1.069 | 0.95 |
| 250_V | 299_Y | 1.064 | 0.95 |
| 279_K | 283_F | 1.063 | 0.95 |
| 306_I | 310_A | 1.063 | 0.95 |
| 71_L | 151_L | 1.061 | 0.95 |
| 291_N | 295_N | 1.060 | 0.95 |
| 54_V | 295_N | 1.057 | 0.95 |
| 216_A | 243_L | 1.038 | 0.94 |
| 52_V | 81_F | 1.029 | 0.94 |
| 257_C | 291_N | 1.027 | 0.94 |
| 219_H | 222_S | 1.021 | 0.93 |
| 248_G | 252_A | 1.021 | 0.93 |
| 201_L | 205_I | 1.020 | 0.93 |
| 73_I | 135_L | 1.019 | 0.93 |
| 136_R | 212_V | 1.018 | 0.93 |
| 37_A | 41_T | 1.015 | 0.93 |
| 292_S | 295_N | 1.015 | 0.93 |
| 156_I | 160_L | 1.012 | 0.93 |
| 38_V | 42_L | 1.010 | 0.93 |
| 72_F | 126_L | 1.009 | 0.93 |
| 31_P | 35_A | 1.008 | 0.93 |
| 240_D | 243_L | 1.004 | 0.93 |
| 44_G | 89_C | 1.004 | 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 | |
| 3uonA | 1 | 0.7889 | 100 | 0.389 | Contact Map |
| 4pxzA | 1 | 0.7667 | 100 | 0.391 | Contact Map |
| 3emlA | 1 | 0.8056 | 100 | 0.406 | Contact Map |
| 4iarA | 1 | 0.7944 | 100 | 0.407 | Contact Map |
| 4eiyA | 1 | 0.8056 | 100 | 0.407 | Contact Map |
| 2rh1A | 1 | 0.7917 | 100 | 0.407 | Contact Map |
| 3v2yA | 1 | 0.8444 | 100 | 0.411 | Contact Map |
| 3pblA | 2 | 0.7694 | 100 | 0.412 | Contact Map |
| 3vw7A | 1 | 0.7722 | 100 | 0.412 | Contact Map |
| 4grvA | 1 | 0.7944 | 100 | 0.413 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)