| FleN |
| ID: | 1434365602 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 280 (246) | ||
| Sequences: | 9060 (6086.2) | ||
| Seq/Len: | 36.829 | ||
| Nf(neff/√len): | 388.0 |
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: 36.829).
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 |
| 88_R | 121_L | 4.686 | 1.00 |
| 28_S | 125_V | 4.633 | 1.00 |
| 215_P | 242_A | 4.076 | 1.00 |
| 27_V | 243_F | 3.435 | 1.00 |
| 14_A | 143_A | 3.385 | 1.00 |
| 38_L | 248_Q | 3.355 | 1.00 |
| 35_L | 123_V | 3.316 | 1.00 |
| 229_A | 232_E | 3.081 | 1.00 |
| 40_R | 123_V | 2.937 | 1.00 |
| 182_M | 216_Y | 2.742 | 1.00 |
| 44_L | 54_V | 2.646 | 1.00 |
| 15_V | 31_L | 2.560 | 1.00 |
| 43_M | 121_L | 2.555 | 1.00 |
| 28_S | 44_L | 2.511 | 1.00 |
| 37_D | 244_K | 2.470 | 1.00 |
| 11_Q | 145_E | 2.468 | 1.00 |
| 29_V | 54_V | 2.301 | 1.00 |
| 151_C | 182_M | 2.298 | 1.00 |
| 32_A | 44_L | 2.147 | 1.00 |
| 179_L | 246_V | 2.080 | 1.00 |
| 41_R | 122_D | 2.021 | 1.00 |
| 34_A | 247_A | 2.012 | 1.00 |
| 82_L | 88_R | 1.989 | 1.00 |
| 27_V | 179_L | 1.947 | 1.00 |
| 15_V | 147_L | 1.934 | 1.00 |
| 32_A | 125_V | 1.920 | 1.00 |
| 219_S | 222_K | 1.912 | 1.00 |
| 212_G | 249_K | 1.908 | 1.00 |
| 57_L | 155_T | 1.904 | 1.00 |
| 38_L | 244_K | 1.879 | 1.00 |
| 14_A | 128_T | 1.847 | 1.00 |
| 180_A | 193_F | 1.766 | 1.00 |
| 35_L | 125_V | 1.761 | 1.00 |
| 34_A | 231_Y | 1.729 | 1.00 |
| 212_G | 246_V | 1.720 | 1.00 |
| 31_L | 247_A | 1.678 | 1.00 |
| 15_V | 28_S | 1.602 | 1.00 |
| 32_A | 54_V | 1.596 | 1.00 |
| 12_V | 126_V | 1.591 | 1.00 |
| 56_V | 158_T | 1.591 | 1.00 |
| 58_L | 87_V | 1.557 | 1.00 |
| 36_A | 86_G | 1.548 | 1.00 |
| 31_L | 250_V | 1.545 | 1.00 |
| 237_S | 240_S | 1.532 | 1.00 |
| 40_R | 122_D | 1.516 | 1.00 |
| 40_R | 251_D | 1.510 | 1.00 |
| 29_V | 57_L | 1.506 | 1.00 |
| 23_G | 181_N | 1.490 | 1.00 |
| 211_V | 249_K | 1.483 | 1.00 |
| 217_D | 239_A | 1.471 | 1.00 |
| 77_R | 120_N | 1.471 | 1.00 |
| 47_A | 139_F | 1.466 | 1.00 |
| 197_T | 213_V | 1.462 | 1.00 |
| 36_A | 87_V | 1.424 | 1.00 |
| 184_H | 216_Y | 1.422 | 1.00 |
| 214_I | 239_A | 1.413 | 1.00 |
| 27_V | 181_N | 1.398 | 0.99 |
| 29_V | 58_L | 1.381 | 0.99 |
| 76_L | 90_V | 1.343 | 0.99 |
| 149_V | 181_N | 1.334 | 0.99 |
| 152_D | 180_A | 1.304 | 0.99 |
| 145_E | 177_R | 1.304 | 0.99 |
| 65_T | 68_D | 1.301 | 0.99 |
| 241_L | 244_K | 1.300 | 0.99 |
| 183_A | 213_V | 1.296 | 0.99 |
| 10_V | 124_L | 1.293 | 0.99 |
| 47_A | 66_L | 1.284 | 0.99 |
| 25_T | 57_L | 1.255 | 0.99 |
| 147_L | 179_L | 1.253 | 0.99 |
| 60_L | 89_I | 1.241 | 0.98 |
| 153_E | 156_S | 1.237 | 0.98 |
| 38_L | 251_D | 1.237 | 0.98 |
| 47_A | 126_V | 1.236 | 0.98 |
| 75_E | 78_D | 1.229 | 0.98 |
| 26_N | 220_V | 1.225 | 0.98 |
| 15_V | 125_V | 1.219 | 0.98 |
| 35_L | 42_V | 1.218 | 0.98 |
| 220_V | 239_A | 1.216 | 0.98 |
| 35_L | 247_A | 1.204 | 0.98 |
| 30_N | 231_Y | 1.202 | 0.98 |
| 43_M | 80_L | 1.194 | 0.98 |
| 228_R | 232_E | 1.185 | 0.98 |
| 155_T | 224_V | 1.183 | 0.98 |
| 53_N | 159_D | 1.181 | 0.98 |
| 25_T | 54_V | 1.172 | 0.98 |
| 197_T | 201_D | 1.170 | 0.97 |
| 222_K | 226_K | 1.155 | 0.97 |
| 217_D | 237_S | 1.150 | 0.97 |
| 170_D | 173_M | 1.146 | 0.97 |
| 245_A | 248_Q | 1.137 | 0.97 |
| 103_S | 106_Q | 1.128 | 0.97 |
| 34_A | 244_K | 1.123 | 0.97 |
| 181_N | 243_F | 1.110 | 0.96 |
| 246_V | 250_V | 1.108 | 0.96 |
| 219_S | 234_F | 1.107 | 0.96 |
| 30_N | 33_L | 1.099 | 0.96 |
| 234_F | 237_S | 1.094 | 0.96 |
| 45_L | 124_L | 1.080 | 0.95 |
| 32_A | 87_V | 1.073 | 0.95 |
| 12_V | 124_L | 1.068 | 0.95 |
| 69_V | 79_V | 1.065 | 0.95 |
| 145_E | 176_F | 1.060 | 0.95 |
| 153_E | 221_R | 1.051 | 0.94 |
| 242_A | 245_A | 1.046 | 0.94 |
| 58_L | 89_I | 1.044 | 0.94 |
| 236_R | 241_L | 1.043 | 0.94 |
| 52_A | 92_A | 1.043 | 0.94 |
| 27_V | 31_L | 1.040 | 0.94 |
| 210_Y | 213_V | 1.038 | 0.94 |
| 214_I | 242_A | 1.034 | 0.94 |
| 43_M | 124_L | 1.032 | 0.94 |
| 238_K | 241_L | 1.026 | 0.94 |
| 34_A | 243_F | 1.025 | 0.93 |
| 53_N | 155_T | 1.021 | 0.93 |
| 41_R | 120_N | 1.013 | 0.93 |
| 173_M | 177_R | 1.013 | 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 | |
| 1hyqA | 1 | 0.825 | 100 | 0.339 | Contact Map |
| 3fwyA | 2 | 0.8893 | 100 | 0.373 | Contact Map |
| 1g3qA | 1 | 0.8393 | 100 | 0.375 | Contact Map |
| 4pfsA | 2 | 0.8357 | 100 | 0.378 | Contact Map |
| 1wcv1 | 1 | 0.8429 | 100 | 0.382 | Contact Map |
| 3ea0A | 2 | 0.8357 | 100 | 0.387 | Contact Map |
| 3q9lA | 2 | 0.875 | 100 | 0.389 | Contact Map |
| 2ynmA | 2 | 0.8857 | 100 | 0.39 | Contact Map |
| 3pg5A | 4 | 0.7821 | 100 | 0.391 | Contact Map |
| 1cp2A | 2 | 0.8964 | 100 | 0.398 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)