| 10-12 |
| ID: | 1510681042 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 347 (323) | ||
| Sequences: | 400 (283.3) | ||
| Seq/Len: | 1.238 | ||
| Nf(neff/√len): | 15.8 |
Jackhmmer Results: (2016_04)
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: 1.238).
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 |
| 152_M | 197_A | 3.795 | 1.00 |
| 195_V | 211_V | 2.495 | 1.00 |
| 71_E | 112_D | 2.268 | 0.99 |
| 69_D | 112_D | 2.223 | 0.99 |
| 124_G | 137_L | 2.202 | 0.99 |
| 44_I | 47_G | 2.168 | 0.98 |
| 285_A | 299_L | 2.160 | 0.98 |
| 141_A | 154_Y | 1.987 | 0.97 |
| 31_I | 62_I | 1.905 | 0.96 |
| 44_I | 48_N | 1.845 | 0.95 |
| 171_E | 257_V | 1.782 | 0.93 |
| 109_D | 117_F | 1.724 | 0.92 |
| 28_V | 62_I | 1.699 | 0.91 |
| 156_L | 170_V | 1.658 | 0.89 |
| 122_Y | 139_V | 1.653 | 0.89 |
| 55_I | 62_I | 1.643 | 0.89 |
| 265_R | 280_D | 1.608 | 0.87 |
| 25_G | 28_V | 1.607 | 0.87 |
| 177_I | 188_R | 1.597 | 0.87 |
| 109_D | 112_D | 1.593 | 0.87 |
| 259_V | 262_I | 1.575 | 0.86 |
| 179_T | 183_F | 1.534 | 0.84 |
| 146_T | 150_S | 1.532 | 0.84 |
| 191_F | 209_A | 1.496 | 0.82 |
| 225_V | 230_P | 1.495 | 0.82 |
| 42_Y | 60_G | 1.490 | 0.81 |
| 126_V | 134_A | 1.484 | 0.81 |
| 29_G | 33_A | 1.484 | 0.81 |
| 122_Y | 136_V | 1.479 | 0.81 |
| 48_N | 51_D | 1.465 | 0.80 |
| 71_E | 113_H | 1.464 | 0.80 |
| 71_E | 109_D | 1.459 | 0.80 |
| 306_K | 310_I | 1.456 | 0.79 |
| 111_N | 199_D | 1.447 | 0.79 |
| 70_Y | 112_D | 1.438 | 0.78 |
| 211_V | 253_P | 1.436 | 0.78 |
| 24_K | 213_V | 1.432 | 0.78 |
| 71_E | 117_F | 1.426 | 0.77 |
| 126_V | 192_K | 1.416 | 0.77 |
| 112_D | 117_F | 1.407 | 0.76 |
| 109_D | 113_H | 1.406 | 0.76 |
| 62_I | 103_V | 1.404 | 0.76 |
| 9_T | 14_R | 1.396 | 0.75 |
| 71_E | 111_N | 1.393 | 0.75 |
| 69_D | 113_H | 1.385 | 0.74 |
| 111_N | 117_F | 1.383 | 0.74 |
| 108_Q | 294_V | 1.364 | 0.73 |
| 174_T | 211_V | 1.349 | 0.72 |
| 78_L | 301_K | 1.344 | 0.71 |
| 46_S | 49_E | 1.339 | 0.71 |
| 147_G | 293_A | 1.333 | 0.70 |
| 69_D | 117_F | 1.322 | 0.69 |
| 69_D | 109_D | 1.322 | 0.69 |
| 139_V | 154_Y | 1.319 | 0.69 |
| 62_I | 134_A | 1.319 | 0.69 |
| 52_K | 76_Y | 1.299 | 0.67 |
| 27_M | 33_A | 1.280 | 0.66 |
| 213_V | 216_V | 1.269 | 0.65 |
| 39_S | 56_N | 1.260 | 0.64 |
| 10_Q | 14_R | 1.259 | 0.64 |
| 110_E | 176_L | 1.240 | 0.62 |
| 114_P | 142_T | 1.226 | 0.61 |
| 275_D | 278_K | 1.225 | 0.61 |
| 18_V | 66_A | 1.222 | 0.61 |
| 260_E | 284_Y | 1.207 | 0.59 |
| 49_E | 55_I | 1.199 | 0.58 |
| 113_H | 117_F | 1.196 | 0.58 |
| 163_E | 167_G | 1.194 | 0.58 |
| 284_Y | 287_D | 1.192 | 0.58 |
| 268_G | 272_S | 1.191 | 0.58 |
| 325_L | 329_T | 1.190 | 0.57 |
| 130_A | 136_V | 1.190 | 0.57 |
| 13_Y | 103_V | 1.169 | 0.55 |
| 25_G | 32_S | 1.167 | 0.55 |
| 69_D | 111_N | 1.167 | 0.55 |
| 23_A | 26_T | 1.167 | 0.55 |
| 177_I | 252_I | 1.164 | 0.55 |
| 224_I | 240_L | 1.158 | 0.54 |
| 105_I | 201_Y | 1.148 | 0.53 |
| 110_E | 126_V | 1.146 | 0.53 |
| 46_S | 51_D | 1.141 | 0.53 |
| 324_I | 329_T | 1.140 | 0.53 |
| 155_R | 242_E | 1.140 | 0.53 |
| 87_V | 90_A | 1.139 | 0.53 |
| 147_G | 150_S | 1.135 | 0.52 |
| 42_Y | 179_T | 1.133 | 0.52 |
| 126_V | 183_F | 1.128 | 0.51 |
| 268_G | 274_E | 1.126 | 0.51 |
| 179_T | 290_T | 1.125 | 0.51 |
| 193_F | 212_L | 1.124 | 0.51 |
| 209_A | 240_L | 1.124 | 0.51 |
| 47_G | 51_D | 1.123 | 0.51 |
| 180_A | 213_V | 1.120 | 0.51 |
| 39_S | 99_N | 1.118 | 0.50 |
| 118_Q | 140_K | 1.117 | 0.50 |
| 20_E | 143_D | 1.116 | 0.50 |
| 28_V | 33_A | 1.115 | 0.50 |
| 23_A | 31_I | 1.113 | 0.50 |
| 126_V | 275_D | 1.113 | 0.50 |
| 76_Y | 147_G | 1.112 | 0.50 |
| 122_Y | 275_D | 1.109 | 0.50 |
| 80_V | 105_I | 1.109 | 0.50 |
| 201_Y | 205_L | 1.105 | 0.49 |
| 96_S | 136_V | 1.103 | 0.49 |
| 147_G | 197_A | 1.100 | 0.49 |
| 213_V | 235_K | 1.100 | 0.49 |
| 42_Y | 214_S | 1.097 | 0.48 |
| 55_I | 119_K | 1.097 | 0.48 |
| 105_I | 139_V | 1.096 | 0.48 |
| 73_R | 138_R | 1.096 | 0.48 |
| 80_V | 289_Q | 1.093 | 0.48 |
| 323_R | 327_I | 1.091 | 0.48 |
| 40_I | 125_G | 1.090 | 0.48 |
| 279_C | 284_Y | 1.088 | 0.48 |
| 321_G | 325_L | 1.088 | 0.48 |
| 62_I | 127_S | 1.084 | 0.47 |
| 152_M | 213_V | 1.081 | 0.47 |
| 13_Y | 55_I | 1.075 | 0.46 |
| 153_A | 178_K | 1.072 | 0.46 |
| 112_D | 279_C | 1.072 | 0.46 |
| 122_Y | 211_V | 1.071 | 0.46 |
| 33_A | 82_A | 1.061 | 0.45 |
| 12_E | 19_S | 1.060 | 0.45 |
| 63_Y | 76_Y | 1.051 | 0.44 |
| 80_V | 101_A | 1.050 | 0.44 |
| 101_A | 139_V | 1.050 | 0.44 |
| 20_E | 31_I | 1.049 | 0.44 |
| 33_A | 42_Y | 1.048 | 0.44 |
| 70_Y | 225_V | 1.046 | 0.43 |
| 320_E | 325_L | 1.046 | 0.43 |
| 52_K | 165_K | 1.043 | 0.43 |
| 215_V | 269_D | 1.037 | 0.43 |
| 107_I | 195_V | 1.037 | 0.43 |
| 216_V | 219_L | 1.033 | 0.42 |
| 105_I | 160_P | 1.032 | 0.42 |
| 27_M | 136_V | 1.031 | 0.42 |
| 75_S | 105_I | 1.030 | 0.42 |
| 8_F | 20_E | 1.030 | 0.42 |
| 24_K | 55_I | 1.030 | 0.42 |
| 29_G | 37_N | 1.028 | 0.42 |
| 144_K | 156_L | 1.028 | 0.42 |
| 69_D | 143_D | 1.028 | 0.42 |
| 73_R | 98_S | 1.027 | 0.42 |
| 64_V | 209_A | 1.026 | 0.42 |
| 105_I | 289_Q | 1.026 | 0.42 |
| 237_I | 257_V | 1.024 | 0.41 |
| 107_I | 113_H | 1.023 | 0.41 |
| 22_A | 30_L | 1.023 | 0.41 |
| 207_G | 211_V | 1.019 | 0.41 |
| 9_T | 12_E | 1.019 | 0.41 |
| 220_D | 223_V | 1.019 | 0.41 |
| 128_E | 216_V | 1.017 | 0.41 |
| 288_P | 301_K | 1.017 | 0.41 |
| 177_I | 185_N | 1.015 | 0.40 |
| 76_Y | 211_V | 1.011 | 0.40 |
| 6_P | 12_E | 1.009 | 0.40 |
| 223_V | 229_P | 1.009 | 0.40 |
| 105_I | 261_S | 1.009 | 0.40 |
| 80_V | 191_F | 1.008 | 0.40 |
| 281_L | 286_I | 1.008 | 0.40 |
| 324_I | 327_I | 1.008 | 0.40 |
| 15_P | 29_G | 1.007 | 0.40 |
| 207_G | 293_A | 1.006 | 0.40 |
| 256_K | 293_A | 1.006 | 0.40 |
| 68_L | 107_I | 1.006 | 0.40 |
| 6_P | 15_P | 1.006 | 0.40 |
| 86_E | 89_L | 1.002 | 0.39 |
| 153_A | 172_T | 1.000 | 0.39 |
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 | |
| 3mvsA | 1 | 0.5937 | 100 | 0.528 | Contact Map |
| 2x2uA | 1 | 0.585 | 100 | 0.536 | Contact Map |
| 3ubhA | 1 | 0.5764 | 100 | 0.542 | Contact Map |
| 3k5rA | 2 | 0.5821 | 100 | 0.543 | Contact Map |
| 3qrbA | 2 | 0.5793 | 100 | 0.544 | Contact Map |
| 2a62A | 1 | 0.5821 | 100 | 0.544 | Contact Map |
| 4oy9A | 1 | 0.5764 | 100 | 0.549 | Contact Map |
| 3lndA | 4 | 0.5562 | 100 | 0.554 | Contact Map |
| 4nuqA | 1 | 0.5764 | 100 | 0.556 | Contact Map |
| 3ppeA | 2 | 0.562 | 100 | 0.56 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)