| 4CI0_C |
| ID: | 1488358813 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 281 (262) | ||
| Sequences: | 942 (727.7) | ||
| Seq/Len: | 3.595 | ||
| Nf(neff/√len): | 45.0 |
HHblits Results: (2016_02)
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: 3.595).
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 | 3.240 | 1.00 |
| 227_D | 231_K | 3.034 | 1.00 |
| 106_T | 129_L | 2.904 | 1.00 |
| 8_E | 227_D | 2.852 | 1.00 |
| 131_G | 200_A | 2.839 | 1.00 |
| 14_S | 31_G | 2.736 | 1.00 |
| 33_L | 100_V | 2.708 | 1.00 |
| 64_S | 67_E | 2.676 | 1.00 |
| 128_L | 229_I | 2.580 | 1.00 |
| 110_R | 113_Q | 2.411 | 1.00 |
| 208_G | 218_T | 2.297 | 1.00 |
| 61_V | 91_Q | 2.138 | 1.00 |
| 99_T | 106_T | 2.135 | 1.00 |
| 33_L | 98_G | 2.121 | 1.00 |
| 133_Y | 208_G | 2.104 | 1.00 |
| 42_I | 45_A | 2.097 | 1.00 |
| 104_C | 195_C | 2.087 | 1.00 |
| 101_A | 106_T | 2.081 | 1.00 |
| 13_R | 20_Q | 2.022 | 1.00 |
| 133_Y | 206_S | 1.965 | 1.00 |
| 110_R | 129_L | 1.958 | 1.00 |
| 104_C | 192_C | 1.918 | 1.00 |
| 62_A | 71_A | 1.911 | 1.00 |
| 30_T | 72_A | 1.901 | 1.00 |
| 38_D | 65_S | 1.857 | 1.00 |
| 192_C | 195_C | 1.856 | 1.00 |
| 12_A | 219_V | 1.836 | 0.99 |
| 49_G | 60_M | 1.830 | 0.99 |
| 44_G | 94_I | 1.804 | 0.99 |
| 63_M | 67_E | 1.767 | 0.99 |
| 205_V | 226_G | 1.737 | 0.99 |
| 36_A | 41_I | 1.724 | 0.99 |
| 36_A | 128_L | 1.703 | 0.99 |
| 51_G | 58_Q | 1.690 | 0.99 |
| 25_D | 209_S | 1.622 | 0.98 |
| 30_T | 68_L | 1.619 | 0.98 |
| 34_A | 68_L | 1.595 | 0.98 |
| 19_I | 30_T | 1.582 | 0.98 |
| 47_V | 62_A | 1.535 | 0.97 |
| 36_A | 98_G | 1.514 | 0.97 |
| 130_V | 207_T | 1.504 | 0.97 |
| 63_M | 95_E | 1.502 | 0.97 |
| 35_Y | 38_D | 1.497 | 0.97 |
| 47_V | 71_A | 1.482 | 0.97 |
| 223_T | 226_G | 1.467 | 0.96 |
| 28_I | 207_T | 1.433 | 0.96 |
| 102_I | 105_Q | 1.409 | 0.95 |
| 51_G | 56_K | 1.409 | 0.95 |
| 136_E | 188_E | 1.405 | 0.95 |
| 159_E | 173_Q | 1.396 | 0.95 |
| 76_Y | 209_S | 1.396 | 0.95 |
| 48_A | 57_P | 1.380 | 0.94 |
| 133_Y | 218_T | 1.367 | 0.94 |
| 12_A | 28_I | 1.361 | 0.94 |
| 62_A | 67_E | 1.335 | 0.93 |
| 33_L | 42_I | 1.323 | 0.93 |
| 219_V | 230_F | 1.317 | 0.92 |
| 26_G | 76_Y | 1.313 | 0.92 |
| 197_D | 222_R | 1.307 | 0.92 |
| 30_T | 34_A | 1.294 | 0.92 |
| 25_D | 76_Y | 1.278 | 0.91 |
| 34_A | 38_D | 1.268 | 0.90 |
| 60_M | 70_A | 1.262 | 0.90 |
| 28_I | 68_L | 1.254 | 0.90 |
| 37_L | 42_I | 1.252 | 0.90 |
| 25_D | 138_F | 1.251 | 0.90 |
| 224_D | 228_S | 1.248 | 0.90 |
| 9_I | 220_I | 1.246 | 0.89 |
| 29_V | 100_V | 1.239 | 0.89 |
| 49_G | 71_A | 1.229 | 0.89 |
| 164_G | 209_S | 1.222 | 0.88 |
| 224_D | 227_D | 1.208 | 0.87 |
| 135_M | 138_F | 1.206 | 0.87 |
| 221_T | 227_D | 1.206 | 0.87 |
| 7_K | 227_D | 1.174 | 0.85 |
| 28_I | 132_I | 1.169 | 0.85 |
| 104_C | 134_C | 1.168 | 0.85 |
| 60_M | 71_A | 1.162 | 0.85 |
| 24_Q | 73_G | 1.154 | 0.84 |
| 65_S | 69_K | 1.150 | 0.84 |
| 25_D | 217_S | 1.137 | 0.83 |
| 83_M | 87_K | 1.130 | 0.82 |
| 24_Q | 135_M | 1.128 | 0.82 |
| 157_L | 173_Q | 1.125 | 0.82 |
| 134_C | 195_C | 1.121 | 0.81 |
| 110_R | 202_L | 1.119 | 0.81 |
| 239_F | 245_E | 1.117 | 0.81 |
| 26_G | 74_T | 1.117 | 0.81 |
| 230_F | 233_A | 1.096 | 0.79 |
| 13_R | 240_E | 1.093 | 0.79 |
| 33_L | 68_L | 1.090 | 0.79 |
| 68_L | 71_A | 1.080 | 0.78 |
| 212_S | 218_T | 1.079 | 0.78 |
| 67_E | 70_A | 1.077 | 0.78 |
| 231_K | 234_V | 1.075 | 0.78 |
| 39_E | 232_Q | 1.067 | 0.77 |
| 25_D | 74_T | 1.067 | 0.77 |
| 60_M | 109_I | 1.065 | 0.77 |
| 31_G | 233_A | 1.063 | 0.76 |
| 230_F | 234_V | 1.054 | 0.76 |
| 28_I | 219_V | 1.052 | 0.75 |
| 34_A | 65_S | 1.047 | 0.75 |
| 49_G | 58_Q | 1.041 | 0.74 |
| 262_K | 265_A | 1.036 | 0.74 |
| 88_A | 106_T | 1.028 | 0.73 |
| 205_V | 230_F | 1.024 | 0.73 |
| 260_Q | 263_E | 1.023 | 0.73 |
| 255_E | 259_A | 1.020 | 0.72 |
| 19_I | 27_G | 1.015 | 0.72 |
| 63_M | 66_D | 1.013 | 0.71 |
| 230_F | 239_F | 1.010 | 0.71 |
| 255_E | 260_Q | 1.009 | 0.71 |
| 143_L | 163_I | 1.004 | 0.70 |
| 255_E | 266_E | 1.003 | 0.70 |
| 11_S | 211_G | 1.002 | 0.70 |
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 | |
| 4omfB | 1 | 0.9964 | 100 | 0.131 | Contact Map |
| 2mjgA | 2 | 0.1566 | 28.3 | 0.956 | Contact Map |
| 1rcuA | 4 | 0.2598 | 8.5 | 0.965 | Contact Map |
| 4d9bA | 4 | 0.4982 | 5.8 | 0.968 | Contact Map |
| 4j29A | 1 | 0.1922 | 4.2 | 0.97 | Contact Map |
| 3oj0A | 1 | 0.452 | 3.6 | 0.971 | Contact Map |
| 3jyoA | 1 | 0.5801 | 3.5 | 0.971 | Contact Map |
| 2oo2A | 1 | 0.1851 | 3.1 | 0.972 | Contact Map |
| 2zi0A | 2 | 0.1388 | 3 | 0.972 | Contact Map |
| 1t35A | 8 | 0.2491 | 2.9 | 0.972 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)