| Fw0Ftj |
| ID: | 1433337948 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 258 (232) | ||
| Sequences: | 10266 (7634.5) | ||
| Seq/Len: | 44.250 | ||
| Nf(neff/√len): | 501.2 |
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: 44.250).
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 |
| 43_H | 237_K | 3.586 | 1.00 |
| 133_G | 183_G | 3.281 | 1.00 |
| 101_K | 236_L | 2.932 | 1.00 |
| 89_I | 94_E | 2.849 | 1.00 |
| 6_T | 80_A | 2.620 | 1.00 |
| 39_E | 243_L | 2.540 | 1.00 |
| 243_L | 246_K | 2.534 | 1.00 |
| 74_E | 80_A | 2.489 | 1.00 |
| 89_I | 218_G | 2.488 | 1.00 |
| 228_G | 232_N | 2.477 | 1.00 |
| 39_E | 42_K | 2.393 | 1.00 |
| 97_I | 220_A | 2.361 | 1.00 |
| 245_D | 249_N | 2.358 | 1.00 |
| 41_A | 48_Y | 2.356 | 1.00 |
| 168_V | 177_R | 2.325 | 1.00 |
| 91_L | 94_E | 2.306 | 1.00 |
| 221_T | 231_V | 2.261 | 1.00 |
| 221_T | 228_G | 2.253 | 1.00 |
| 76_V | 96_V | 2.244 | 1.00 |
| 98_D | 228_G | 2.220 | 1.00 |
| 74_E | 79_K | 2.205 | 1.00 |
| 120_S | 123_D | 2.194 | 1.00 |
| 2_T | 49_K | 2.134 | 1.00 |
| 170_T | 173_E | 2.118 | 1.00 |
| 101_K | 232_N | 2.110 | 1.00 |
| 236_L | 240_E | 2.050 | 1.00 |
| 119_E | 123_D | 2.000 | 1.00 |
| 100_S | 232_N | 1.991 | 1.00 |
| 35_D | 250_K | 1.978 | 1.00 |
| 43_H | 234_A | 1.966 | 1.00 |
| 39_E | 238_L | 1.957 | 1.00 |
| 4_V | 49_K | 1.896 | 1.00 |
| 39_E | 43_H | 1.893 | 1.00 |
| 84_I | 219_I | 1.847 | 1.00 |
| 35_D | 251_W | 1.805 | 1.00 |
| 43_H | 241_Q | 1.793 | 1.00 |
| 105_S | 216_G | 1.779 | 1.00 |
| 33_C | 103_F | 1.764 | 1.00 |
| 222_P | 225_S | 1.755 | 1.00 |
| 2_T | 47_K | 1.755 | 1.00 |
| 229_N | 233_L | 1.704 | 1.00 |
| 4_V | 51_T | 1.663 | 1.00 |
| 44_C | 234_A | 1.657 | 1.00 |
| 40_I | 234_A | 1.628 | 1.00 |
| 38_A | 50_L | 1.563 | 1.00 |
| 24_E | 28_R | 1.562 | 1.00 |
| 24_E | 30_E | 1.561 | 1.00 |
| 98_D | 224_G | 1.557 | 1.00 |
| 72_V | 97_I | 1.525 | 1.00 |
| 177_R | 182_K | 1.503 | 1.00 |
| 71_M | 83_A | 1.501 | 1.00 |
| 53_V | 74_E | 1.497 | 1.00 |
| 174_G | 187_Y | 1.480 | 1.00 |
| 32_Y | 248_K | 1.454 | 1.00 |
| 142_E | 146_R | 1.454 | 1.00 |
| 230_A | 233_L | 1.446 | 1.00 |
| 234_A | 238_L | 1.438 | 1.00 |
| 82_I | 221_T | 1.433 | 1.00 |
| 233_L | 237_K | 1.432 | 1.00 |
| 87_L | 220_A | 1.426 | 1.00 |
| 230_A | 234_A | 1.417 | 1.00 |
| 32_Y | 247_L | 1.415 | 1.00 |
| 36_L | 244_L | 1.405 | 0.99 |
| 73_G | 77_Y | 1.402 | 0.99 |
| 34_V | 38_A | 1.389 | 0.99 |
| 239_N | 244_L | 1.376 | 0.99 |
| 169_R | 173_E | 1.374 | 0.99 |
| 234_A | 237_K | 1.365 | 0.99 |
| 90_T | 93_R | 1.362 | 0.99 |
| 83_A | 87_L | 1.360 | 0.99 |
| 243_L | 247_L | 1.358 | 0.99 |
| 237_K | 241_Q | 1.357 | 0.99 |
| 176_A | 180_K | 1.352 | 0.99 |
| 115_G | 206_M | 1.332 | 0.99 |
| 113_K | 181_S | 1.302 | 0.99 |
| 178_V | 183_G | 1.289 | 0.99 |
| 73_G | 76_V | 1.284 | 0.99 |
| 46_F | 230_A | 1.278 | 0.99 |
| 37_A | 84_I | 1.274 | 0.99 |
| 99_F | 220_A | 1.262 | 0.99 |
| 100_S | 231_V | 1.248 | 0.99 |
| 168_V | 174_G | 1.228 | 0.98 |
| 122_E | 125_S | 1.224 | 0.98 |
| 133_G | 174_G | 1.223 | 0.98 |
| 78_G | 222_P | 1.221 | 0.98 |
| 37_A | 50_L | 1.220 | 0.98 |
| 113_K | 116_T | 1.207 | 0.98 |
| 110_I | 186_A | 1.205 | 0.98 |
| 37_A | 219_I | 1.202 | 0.98 |
| 144_F | 148_K | 1.189 | 0.98 |
| 43_H | 238_L | 1.186 | 0.98 |
| 92_V | 95_E | 1.183 | 0.98 |
| 114_K | 206_M | 1.174 | 0.98 |
| 98_D | 223_K | 1.160 | 0.97 |
| 136_D | 139_S | 1.158 | 0.97 |
| 5_V | 82_I | 1.149 | 0.97 |
| 29_Y | 34_V | 1.141 | 0.97 |
| 177_R | 183_G | 1.131 | 0.97 |
| 43_H | 243_L | 1.124 | 0.97 |
| 179_R | 204_D | 1.121 | 0.97 |
| 232_N | 236_L | 1.119 | 0.96 |
| 82_I | 231_V | 1.118 | 0.96 |
| 176_A | 179_R | 1.116 | 0.96 |
| 30_E | 35_D | 1.111 | 0.96 |
| 72_V | 87_L | 1.111 | 0.96 |
| 28_R | 38_A | 1.091 | 0.96 |
| 35_D | 38_A | 1.085 | 0.96 |
| 32_Y | 252_W | 1.078 | 0.95 |
| 75_L | 83_A | 1.074 | 0.95 |
| 107_G | 191_S | 1.073 | 0.95 |
| 112_I | 208_V | 1.071 | 0.95 |
| 70_G | 74_E | 1.065 | 0.95 |
| 5_V | 37_A | 1.062 | 0.95 |
| 137_S | 169_R | 1.049 | 0.94 |
| 39_E | 247_L | 1.039 | 0.94 |
| 173_E | 176_A | 1.038 | 0.94 |
| 248_K | 252_W | 1.035 | 0.94 |
| 53_V | 80_A | 1.029 | 0.94 |
| 178_V | 187_Y | 1.029 | 0.94 |
| 16_M | 52_I | 1.028 | 0.94 |
| 54_G | 70_G | 1.026 | 0.94 |
| 38_A | 42_K | 1.013 | 0.93 |
| 15_M | 30_E | 1.009 | 0.93 |
| 37_A | 48_Y | 1.005 | 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 | |
| 3g3kA | 2 | 0.9806 | 100 | 0.239 | Contact Map |
| 1yaeA | 6 | 0.9767 | 100 | 0.247 | Contact Map |
| 4igtA | 1 | 0.9961 | 100 | 0.251 | Contact Map |
| 1pb7A | 1 | 0.9031 | 100 | 0.283 | Contact Map |
| 2yjpA | 3 | 0.8605 | 100 | 0.308 | Contact Map |
| 4powA | 2 | 0.8605 | 100 | 0.312 | Contact Map |
| 4jwxA | 1 | 0.9419 | 100 | 0.313 | Contact Map |
| 2y7iA | 2 | 0.8411 | 100 | 0.314 | Contact Map |
| 3k4uA | 6 | 0.8605 | 100 | 0.318 | Contact Map |
| 4io2A | 2 | 0.8605 | 100 | 0.318 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)