| FrhB |
| ID: | 1393316581 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 281 (264) | ||
| Sequences: | 623 (487) | ||
| Seq/Len: | 2.360 | ||
| Nf(neff/√len): | 30.0 |
HHblits Results: (2013_03)
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: 2.360).
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 |
| 221_T | 230_F | 3.033 | 1.00 |
| 64_S | 67_E | 2.769 | 1.00 |
| 14_S | 31_G | 2.757 | 1.00 |
| 8_E | 227_D | 2.644 | 1.00 |
| 44_G | 94_I | 2.280 | 1.00 |
| 131_G | 200_A | 2.231 | 1.00 |
| 61_V | 88_A | 2.212 | 1.00 |
| 227_D | 231_K | 2.208 | 1.00 |
| 208_G | 218_T | 2.195 | 1.00 |
| 33_L | 98_G | 2.169 | 1.00 |
| 101_A | 106_T | 2.165 | 1.00 |
| 231_K | 234_V | 2.074 | 1.00 |
| 99_T | 106_T | 2.056 | 0.99 |
| 13_R | 240_E | 2.048 | 0.99 |
| 62_A | 71_A | 1.942 | 0.99 |
| 106_T | 129_L | 1.836 | 0.99 |
| 33_L | 100_V | 1.808 | 0.98 |
| 110_R | 129_L | 1.791 | 0.98 |
| 67_E | 70_A | 1.751 | 0.98 |
| 157_L | 173_Q | 1.712 | 0.97 |
| 47_V | 88_A | 1.693 | 0.97 |
| 12_A | 219_V | 1.675 | 0.97 |
| 36_A | 128_L | 1.673 | 0.97 |
| 133_Y | 206_S | 1.650 | 0.97 |
| 38_D | 65_S | 1.620 | 0.96 |
| 205_V | 226_G | 1.600 | 0.96 |
| 62_A | 67_E | 1.598 | 0.96 |
| 28_I | 219_V | 1.591 | 0.95 |
| 34_A | 68_L | 1.580 | 0.95 |
| 197_D | 222_R | 1.576 | 0.95 |
| 29_V | 100_V | 1.573 | 0.95 |
| 104_C | 195_C | 1.559 | 0.95 |
| 128_L | 229_I | 1.539 | 0.94 |
| 36_A | 229_I | 1.534 | 0.94 |
| 36_A | 98_G | 1.528 | 0.94 |
| 219_V | 230_F | 1.524 | 0.94 |
| 28_I | 207_T | 1.523 | 0.94 |
| 42_I | 45_A | 1.522 | 0.94 |
| 133_Y | 208_G | 1.513 | 0.94 |
| 102_I | 105_Q | 1.480 | 0.93 |
| 14_S | 23_A | 1.474 | 0.92 |
| 35_Y | 38_D | 1.474 | 0.92 |
| 228_S | 231_K | 1.473 | 0.92 |
| 25_D | 209_S | 1.471 | 0.92 |
| 37_L | 42_I | 1.451 | 0.92 |
| 28_I | 68_L | 1.402 | 0.90 |
| 47_V | 61_V | 1.398 | 0.90 |
| 85_L | 106_T | 1.397 | 0.90 |
| 11_S | 212_S | 1.396 | 0.90 |
| 47_V | 71_A | 1.369 | 0.88 |
| 252_G | 255_E | 1.356 | 0.88 |
| 145_T | 149_E | 1.335 | 0.87 |
| 223_T | 226_G | 1.300 | 0.84 |
| 32_L | 233_A | 1.287 | 0.84 |
| 49_G | 57_P | 1.278 | 0.83 |
| 205_V | 230_F | 1.277 | 0.83 |
| 249_P | 253_L | 1.276 | 0.83 |
| 59_P | 79_S | 1.269 | 0.82 |
| 260_Q | 263_E | 1.261 | 0.82 |
| 47_V | 62_A | 1.260 | 0.82 |
| 13_R | 20_Q | 1.259 | 0.82 |
| 19_I | 30_T | 1.251 | 0.81 |
| 110_R | 202_L | 1.247 | 0.81 |
| 192_C | 195_C | 1.240 | 0.80 |
| 12_A | 239_F | 1.234 | 0.80 |
| 42_I | 108_G | 1.229 | 0.80 |
| 104_C | 192_C | 1.226 | 0.79 |
| 250_G | 253_L | 1.214 | 0.78 |
| 12_A | 20_Q | 1.207 | 0.78 |
| 139_P | 215_G | 1.204 | 0.78 |
| 60_M | 71_A | 1.197 | 0.77 |
| 87_K | 229_I | 1.196 | 0.77 |
| 46_V | 99_T | 1.186 | 0.76 |
| 113_Q | 117_F | 1.184 | 0.76 |
| 9_I | 220_I | 1.176 | 0.75 |
| 30_T | 34_A | 1.175 | 0.75 |
| 143_L | 146_F | 1.174 | 0.75 |
| 66_D | 232_Q | 1.169 | 0.75 |
| 211_G | 215_G | 1.161 | 0.74 |
| 63_M | 95_E | 1.160 | 0.74 |
| 34_A | 38_D | 1.157 | 0.74 |
| 249_P | 252_G | 1.156 | 0.74 |
| 263_E | 266_E | 1.147 | 0.73 |
| 224_D | 227_D | 1.136 | 0.72 |
| 110_R | 113_Q | 1.128 | 0.71 |
| 35_Y | 39_E | 1.127 | 0.71 |
| 29_V | 217_S | 1.122 | 0.70 |
| 36_A | 41_I | 1.112 | 0.69 |
| 25_D | 138_F | 1.107 | 0.69 |
| 35_Y | 232_Q | 1.105 | 0.69 |
| 75_K | 105_Q | 1.104 | 0.69 |
| 184_T | 208_G | 1.100 | 0.68 |
| 52_E | 56_K | 1.089 | 0.67 |
| 47_V | 217_S | 1.088 | 0.67 |
| 138_F | 209_S | 1.087 | 0.67 |
| 39_E | 232_Q | 1.084 | 0.67 |
| 19_I | 223_T | 1.078 | 0.66 |
| 62_A | 68_L | 1.069 | 0.65 |
| 15_T | 235_E | 1.067 | 0.65 |
| 140_Y | 143_L | 1.064 | 0.64 |
| 62_A | 70_A | 1.063 | 0.64 |
| 165_K | 168_F | 1.062 | 0.64 |
| 26_G | 74_T | 1.061 | 0.64 |
| 65_S | 68_L | 1.061 | 0.64 |
| 136_E | 209_S | 1.052 | 0.63 |
| 135_M | 210_V | 1.051 | 0.63 |
| 73_G | 180_P | 1.051 | 0.63 |
| 46_V | 97_L | 1.050 | 0.63 |
| 143_L | 163_I | 1.049 | 0.63 |
| 164_G | 209_S | 1.049 | 0.63 |
| 76_Y | 209_S | 1.048 | 0.63 |
| 37_L | 158_V | 1.045 | 0.62 |
| 136_E | 188_E | 1.039 | 0.62 |
| 159_E | 173_Q | 1.034 | 0.61 |
| 94_I | 125_K | 1.034 | 0.61 |
| 26_G | 76_Y | 1.033 | 0.61 |
| 128_L | 228_S | 1.028 | 0.60 |
| 220_I | 239_F | 1.028 | 0.60 |
| 136_E | 189_Q | 1.024 | 0.60 |
| 137_N | 189_Q | 1.023 | 0.60 |
| 31_G | 233_A | 1.017 | 0.59 |
| 30_T | 72_A | 1.015 | 0.59 |
| 87_K | 92_Y | 1.011 | 0.59 |
| 265_A | 268_N | 1.011 | 0.59 |
| 212_S | 216_W | 1.011 | 0.59 |
| 41_I | 229_I | 1.007 | 0.58 |
| 12_A | 241_T | 1.006 | 0.58 |
| 12_A | 28_I | 1.005 | 0.58 |
| 33_L | 68_L | 1.004 | 0.58 |
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 | |
| 3zfsC | 1 | 0.9893 | 100 | 0.084 | Contact Map |
| 1vk9A | 1 | 0.2491 | 11.6 | 0.966 | Contact Map |
| 4khbA | 4 | 0.1495 | 8 | 0.968 | Contact Map |
| 3i2wA | 2 | 0.2384 | 6.9 | 0.969 | Contact Map |
| 4dylA | 1 | 0.1957 | 6.5 | 0.97 | Contact Map |
| 1jvnA | 2 | 0.2705 | 5.5 | 0.971 | Contact Map |
| 2hgoA | 1 | 0.0925 | 4.5 | 0.972 | Contact Map |
| 1tqxA | 2 | 0.2491 | 4.2 | 0.972 | Contact Map |
| 4iqyA | 2 | 0.4804 | 3.9 | 0.973 | Contact Map |
| 1yd9A | 4 | 0.4982 | 3.8 | 0.973 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)