| abcg5 |
| ID: | 1446577551 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 291 (280) | ||
| Sequences: | 7978 (5382.3) | ||
| Seq/Len: | 28.493 | ||
| Nf(neff/√len): | 321.7 |
HHblits Results: (2015_06)
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: 28.493).
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 |
| 159_V | 277_L | 3.465 | 1.00 |
| 149_P | 211_C | 3.371 | 1.00 |
| 13_R | 17_R | 2.809 | 1.00 |
| 41_L | 129_T | 2.793 | 1.00 |
| 145_A | 214_I | 2.573 | 1.00 |
| 120_M | 143_S | 2.483 | 1.00 |
| 4_V | 101_W | 2.382 | 1.00 |
| 7_K | 102_Q | 2.381 | 1.00 |
| 20_V | 23_K | 2.362 | 1.00 |
| 9_G | 13_R | 2.279 | 1.00 |
| 152_I | 271_I | 2.249 | 1.00 |
| 123_S | 142_F | 2.228 | 1.00 |
| 227_C | 240_C | 2.227 | 1.00 |
| 159_V | 281_V | 2.175 | 1.00 |
| 136_V | 140_G | 2.162 | 1.00 |
| 62_L | 130_L | 2.109 | 1.00 |
| 133_H | 138_R | 2.096 | 1.00 |
| 163_I | 281_V | 1.992 | 1.00 |
| 8_L | 109_L | 1.975 | 1.00 |
| 85_L | 107_Y | 1.966 | 1.00 |
| 148_A | 264_F | 1.945 | 1.00 |
| 4_V | 8_L | 1.920 | 1.00 |
| 155_F | 275_V | 1.910 | 1.00 |
| 197_I | 200_K | 1.903 | 1.00 |
| 261_T | 265_L | 1.896 | 1.00 |
| 45_L | 129_T | 1.885 | 1.00 |
| 148_A | 268_Y | 1.856 | 1.00 |
| 203_S | 209_K | 1.849 | 1.00 |
| 11_L | 106_A | 1.843 | 1.00 |
| 276_I | 280_V | 1.822 | 1.00 |
| 192_I | 203_S | 1.796 | 1.00 |
| 34_L | 125_V | 1.736 | 1.00 |
| 200_K | 203_S | 1.735 | 1.00 |
| 59_R | 219_E | 1.728 | 1.00 |
| 210_Y | 263_N | 1.725 | 1.00 |
| 244_Q | 247_Q | 1.722 | 1.00 |
| 155_F | 271_I | 1.678 | 1.00 |
| 262_M | 266_I | 1.573 | 1.00 |
| 141_Y | 260_F | 1.562 | 1.00 |
| 265_L | 269_S | 1.561 | 1.00 |
| 8_L | 12_L | 1.558 | 1.00 |
| 42_F | 45_L | 1.552 | 1.00 |
| 124_S | 139_F | 1.498 | 1.00 |
| 17_R | 21_R | 1.497 | 1.00 |
| 266_I | 269_S | 1.497 | 1.00 |
| 273_A | 277_L | 1.496 | 1.00 |
| 144_A | 264_F | 1.492 | 1.00 |
| 62_L | 126_C | 1.489 | 1.00 |
| 159_V | 274_L | 1.474 | 1.00 |
| 62_L | 132_L | 1.449 | 1.00 |
| 214_I | 263_N | 1.449 | 1.00 |
| 99_Q | 102_Q | 1.445 | 1.00 |
| 10_V | 13_R | 1.445 | 1.00 |
| 108_A | 275_V | 1.443 | 1.00 |
| 151_L | 271_I | 1.429 | 1.00 |
| 141_Y | 144_A | 1.429 | 1.00 |
| 6_S | 9_G | 1.418 | 1.00 |
| 198_P | 201_I | 1.414 | 1.00 |
| 145_A | 264_F | 1.408 | 1.00 |
| 141_Y | 218_N | 1.408 | 1.00 |
| 27_I | 31_L | 1.408 | 1.00 |
| 124_S | 128_W | 1.404 | 0.99 |
| 148_A | 271_I | 1.394 | 0.99 |
| 245_G | 249_I | 1.389 | 0.99 |
| 8_L | 105_L | 1.386 | 0.99 |
| 46_R | 134_P | 1.350 | 0.99 |
| 85_L | 103_M | 1.344 | 0.99 |
| 279_I | 283_K | 1.340 | 0.99 |
| 101_W | 279_I | 1.340 | 0.99 |
| 248_F | 253_C | 1.319 | 0.99 |
| 12_L | 106_A | 1.317 | 0.99 |
| 269_S | 273_A | 1.312 | 0.99 |
| 3_G | 6_S | 1.301 | 0.99 |
| 160_L | 164_V | 1.294 | 0.99 |
| 140_G | 144_A | 1.289 | 0.99 |
| 210_Y | 270_F | 1.286 | 0.99 |
| 213_E | 263_N | 1.280 | 0.99 |
| 212_S | 216_V | 1.274 | 0.99 |
| 164_V | 173_V | 1.269 | 0.99 |
| 4_V | 102_Q | 1.268 | 0.99 |
| 247_Q | 250_E | 1.263 | 0.99 |
| 280_V | 284_I | 1.260 | 0.99 |
| 104_M | 278_G | 1.257 | 0.99 |
| 262_M | 265_L | 1.253 | 0.99 |
| 195_M | 200_K | 1.252 | 0.99 |
| 47_V | 59_R | 1.250 | 0.99 |
| 11_L | 102_Q | 1.248 | 0.99 |
| 200_K | 204_Y | 1.239 | 0.98 |
| 92_E | 97_L | 1.237 | 0.98 |
| 237_N | 240_C | 1.231 | 0.98 |
| 216_V | 249_I | 1.228 | 0.98 |
| 264_F | 268_Y | 1.227 | 0.98 |
| 156_L | 177_L | 1.222 | 0.98 |
| 12_L | 109_L | 1.219 | 0.98 |
| 128_W | 134_P | 1.216 | 0.98 |
| 37_G | 125_V | 1.214 | 0.98 |
| 166_N | 169_I | 1.200 | 0.98 |
| 211_C | 267_L | 1.198 | 0.98 |
| 234_V | 237_N | 1.197 | 0.98 |
| 175_A | 181_G | 1.185 | 0.98 |
| 50_N | 54_G | 1.183 | 0.98 |
| 125_V | 129_T | 1.179 | 0.98 |
| 16_T | 110_H | 1.176 | 0.98 |
| 60_V | 216_V | 1.170 | 0.97 |
| 123_S | 143_S | 1.163 | 0.97 |
| 221_Y | 246_I | 1.162 | 0.97 |
| 102_Q | 106_A | 1.156 | 0.97 |
| 17_R | 20_V | 1.142 | 0.97 |
| 135_E | 138_R | 1.133 | 0.97 |
| 76_L | 80_N | 1.132 | 0.97 |
| 106_A | 110_H | 1.124 | 0.97 |
| 126_C | 130_L | 1.124 | 0.97 |
| 152_I | 274_L | 1.122 | 0.97 |
| 204_Y | 210_Y | 1.122 | 0.97 |
| 165_Q | 169_I | 1.112 | 0.96 |
| 248_F | 252_T | 1.111 | 0.96 |
| 37_G | 122_F | 1.107 | 0.96 |
| 235_T | 238_P | 1.104 | 0.96 |
| 137_A | 140_G | 1.100 | 0.96 |
| 12_L | 16_T | 1.086 | 0.96 |
| 201_I | 204_Y | 1.086 | 0.96 |
| 160_L | 177_L | 1.080 | 0.95 |
| 145_A | 211_C | 1.080 | 0.95 |
| 152_I | 267_L | 1.080 | 0.95 |
| 246_I | 250_E | 1.077 | 0.95 |
| 210_Y | 266_I | 1.068 | 0.95 |
| 116_V | 147_L | 1.059 | 0.95 |
| 38_L | 42_F | 1.050 | 0.94 |
| 16_T | 20_V | 1.049 | 0.94 |
| 181_G | 202_I | 1.046 | 0.94 |
| 5_F | 8_L | 1.044 | 0.94 |
| 34_L | 121_I | 1.044 | 0.94 |
| 198_P | 202_I | 1.040 | 0.94 |
| 83_P | 161_L | 1.035 | 0.94 |
| 185_G | 199_F | 1.031 | 0.94 |
| 15_V | 107_Y | 1.031 | 0.94 |
| 48_R | 55_A | 1.027 | 0.94 |
| 191_N | 194_E | 1.020 | 0.93 |
| 137_A | 141_Y | 1.017 | 0.93 |
| 14_R | 92_E | 1.013 | 0.93 |
| 233_S | 236_T | 1.012 | 0.93 |
| 104_M | 279_I | 1.009 | 0.93 |
| 239_M | 243_T | 1.009 | 0.93 |
| 143_S | 147_L | 1.009 | 0.93 |
| 210_Y | 214_I | 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 | |
| 2ks1B | 1 | 0.1478 | 26.3 | 0.929 | Contact Map |
| 2jwaA | 2 | 0.1512 | 21.2 | 0.932 | Contact Map |
| 2l2tA | 2 | 0.1409 | 8 | 0.944 | Contact Map |
| 2m20A | 2 | 0.1168 | 7.8 | 0.944 | Contact Map |
| 2kluA | 1 | 0.134 | 6.4 | 0.946 | Contact Map |
| 2k1eA | 4 | 0.3436 | 4.2 | 0.951 | Contact Map |
| 4he8J | 2 | 0.5361 | 4 | 0.951 | Contact Map |
| 2z73A | 2 | 0.1959 | 3.6 | 0.952 | Contact Map |
| 2kncA | 1 | 0.1478 | 3.6 | 0.952 | Contact Map |
| 2rddB | 1 | 0.1031 | 3.2 | 0.954 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)