| MCP hydrolase |
| ID: | 1399260653 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 286 (267) | ||
| Sequences: | 28586 (22350.8) | ||
| Seq/Len: | 107.064 | ||
| Nf(neff/√len): | 1367.8 |
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: 107.064).
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 |
| 107_H | 131_K | 4.456 | 1.00 |
| 29_E | 65_R | 4.165 | 1.00 |
| 72_P | 93_A | 3.789 | 1.00 |
| 235_R | 261_S | 3.095 | 1.00 |
| 230_F | 282_F | 2.991 | 1.00 |
| 258_H | 278_L | 2.945 | 1.00 |
| 95_K | 121_F | 2.724 | 1.00 |
| 105_R | 130_G | 2.718 | 1.00 |
| 271_H | 274_E | 2.714 | 1.00 |
| 55_N | 276_N | 2.554 | 1.00 |
| 135_M | 275_F | 2.451 | 1.00 |
| 107_H | 130_G | 2.372 | 1.00 |
| 99_D | 128_R | 2.365 | 1.00 |
| 260_F | 278_L | 2.285 | 1.00 |
| 122_A | 132_L | 2.234 | 1.00 |
| 249_L | 255_A | 2.234 | 1.00 |
| 136_G | 237_D | 2.216 | 1.00 |
| 95_K | 125_Y | 2.189 | 1.00 |
| 98_M | 106_A | 2.105 | 1.00 |
| 63_G | 280_I | 2.104 | 1.00 |
| 256_R | 285_H | 2.078 | 1.00 |
| 235_R | 259_V | 2.060 | 1.00 |
| 108_L | 118_A | 2.049 | 1.00 |
| 229_T | 252_I | 1.967 | 1.00 |
| 95_K | 99_D | 1.958 | 1.00 |
| 92_R | 124_E | 1.939 | 1.00 |
| 24_N | 78_D | 1.936 | 1.00 |
| 120_N | 124_E | 1.921 | 1.00 |
| 107_H | 283_L | 1.897 | 1.00 |
| 121_F | 125_Y | 1.895 | 1.00 |
| 35_T | 65_R | 1.889 | 1.00 |
| 107_H | 133_I | 1.886 | 1.00 |
| 95_K | 128_R | 1.861 | 1.00 |
| 115_G | 137_P | 1.851 | 1.00 |
| 27_Y | 97_L | 1.846 | 1.00 |
| 118_A | 132_L | 1.808 | 1.00 |
| 263_C | 271_H | 1.802 | 1.00 |
| 133_I | 279_V | 1.789 | 1.00 |
| 26_H | 76_K | 1.739 | 1.00 |
| 35_T | 67_I | 1.724 | 1.00 |
| 242_L | 259_V | 1.709 | 1.00 |
| 69_K | 94_V | 1.698 | 1.00 |
| 278_L | 281_D | 1.687 | 1.00 |
| 39_L | 71_S | 1.683 | 1.00 |
| 94_V | 121_F | 1.630 | 1.00 |
| 277_R | 281_D | 1.615 | 1.00 |
| 221_R | 224_E | 1.600 | 1.00 |
| 39_L | 94_V | 1.587 | 1.00 |
| 40_H | 74_F | 1.576 | 1.00 |
| 59_F | 276_N | 1.562 | 1.00 |
| 39_L | 118_A | 1.544 | 1.00 |
| 62_A | 280_I | 1.538 | 1.00 |
| 274_E | 278_L | 1.535 | 1.00 |
| 91_A | 120_N | 1.535 | 1.00 |
| 88_L | 124_E | 1.534 | 1.00 |
| 67_I | 97_L | 1.524 | 1.00 |
| 29_E | 67_I | 1.520 | 1.00 |
| 133_I | 230_F | 1.511 | 1.00 |
| 40_H | 71_S | 1.496 | 1.00 |
| 120_N | 123_L | 1.493 | 1.00 |
| 64_Y | 107_H | 1.491 | 1.00 |
| 247_K | 251_N | 1.485 | 1.00 |
| 132_L | 229_T | 1.479 | 1.00 |
| 30_A | 68_L | 1.467 | 1.00 |
| 125_Y | 128_R | 1.466 | 1.00 |
| 38_M | 109_V | 1.457 | 1.00 |
| 230_F | 258_H | 1.452 | 1.00 |
| 71_S | 117_T | 1.446 | 1.00 |
| 134_L | 137_P | 1.441 | 1.00 |
| 252_I | 255_A | 1.418 | 1.00 |
| 109_V | 135_M | 1.385 | 0.99 |
| 86_R | 89_V | 1.381 | 0.99 |
| 233_W | 245_G | 1.375 | 0.99 |
| 119_L | 134_L | 1.372 | 0.99 |
| 38_M | 66_V | 1.368 | 0.99 |
| 70_D | 75_N | 1.358 | 0.99 |
| 121_F | 129_I | 1.351 | 0.99 |
| 246_L | 250_W | 1.329 | 0.99 |
| 260_F | 263_C | 1.329 | 0.99 |
| 233_W | 259_V | 1.317 | 0.99 |
| 275_F | 279_V | 1.310 | 0.99 |
| 59_F | 280_I | 1.301 | 0.99 |
| 64_Y | 284_R | 1.300 | 0.99 |
| 242_L | 246_L | 1.296 | 0.99 |
| 41_G | 112_S | 1.295 | 0.99 |
| 46_A | 76_K | 1.286 | 0.99 |
| 99_D | 125_Y | 1.284 | 0.99 |
| 69_K | 97_L | 1.278 | 0.99 |
| 103_I | 106_A | 1.271 | 0.99 |
| 223_G | 251_N | 1.262 | 0.99 |
| 97_L | 101_L | 1.250 | 0.99 |
| 274_E | 277_R | 1.236 | 0.98 |
| 35_T | 103_I | 1.232 | 0.98 |
| 98_M | 103_I | 1.219 | 0.98 |
| 95_K | 124_E | 1.218 | 0.98 |
| 232_T | 260_F | 1.208 | 0.98 |
| 123_L | 221_R | 1.204 | 0.98 |
| 37_I | 98_M | 1.199 | 0.98 |
| 235_R | 262_K | 1.183 | 0.98 |
| 111_N | 268_Q | 1.178 | 0.98 |
| 28_N | 46_A | 1.178 | 0.98 |
| 33_G | 65_R | 1.177 | 0.98 |
| 246_L | 257_L | 1.177 | 0.98 |
| 131_K | 228_K | 1.172 | 0.98 |
| 232_T | 278_L | 1.170 | 0.97 |
| 246_L | 259_V | 1.164 | 0.97 |
| 25_I | 93_A | 1.162 | 0.97 |
| 256_R | 278_L | 1.158 | 0.97 |
| 91_A | 117_T | 1.158 | 0.97 |
| 133_I | 283_L | 1.157 | 0.97 |
| 121_F | 128_R | 1.150 | 0.97 |
| 26_H | 70_D | 1.144 | 0.97 |
| 44_P | 48_G | 1.138 | 0.97 |
| 106_A | 129_I | 1.127 | 0.97 |
| 109_V | 279_V | 1.125 | 0.97 |
| 34_E | 107_H | 1.124 | 0.97 |
| 46_A | 70_D | 1.121 | 0.97 |
| 131_K | 282_F | 1.121 | 0.97 |
| 183_T | 186_L | 1.118 | 0.96 |
| 59_F | 62_A | 1.116 | 0.96 |
| 230_F | 256_R | 1.114 | 0.96 |
| 56_V | 68_L | 1.110 | 0.96 |
| 273_D | 277_R | 1.108 | 0.96 |
| 247_K | 250_W | 1.104 | 0.96 |
| 64_Y | 283_L | 1.101 | 0.96 |
| 131_K | 230_F | 1.099 | 0.96 |
| 233_W | 257_L | 1.095 | 0.96 |
| 46_A | 68_L | 1.094 | 0.96 |
| 110_G | 118_A | 1.082 | 0.96 |
| 263_C | 270_E | 1.073 | 0.95 |
| 36_V | 64_Y | 1.071 | 0.95 |
| 25_I | 77_S | 1.065 | 0.95 |
| 233_W | 242_L | 1.060 | 0.95 |
| 263_C | 267_A | 1.058 | 0.95 |
| 67_I | 101_L | 1.048 | 0.94 |
| 249_L | 257_L | 1.047 | 0.94 |
| 112_S | 265_H | 1.047 | 0.94 |
| 231_I | 255_A | 1.046 | 0.94 |
| 37_I | 106_A | 1.045 | 0.94 |
| 264_G | 270_E | 1.040 | 0.94 |
| 236_D | 262_K | 1.040 | 0.94 |
| 36_V | 66_V | 1.028 | 0.94 |
| 34_E | 130_G | 1.021 | 0.93 |
| 109_V | 133_I | 1.020 | 0.93 |
| 260_F | 274_E | 1.012 | 0.93 |
| 246_L | 249_L | 1.012 | 0.93 |
| 111_N | 266_W | 1.010 | 0.93 |
| 23_F | 72_P | 1.010 | 0.93 |
| 98_M | 121_F | 1.006 | 0.93 |
| 225_I | 252_I | 1.004 | 0.93 |
| 43_G | 112_S | 1.003 | 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 | |
| 2pujA | 1 | 0.9895 | 100 | 0.104 | Contact Map |
| 2wueA | 2 | 0.965 | 100 | 0.151 | Contact Map |
| 1iupA | 1 | 0.9336 | 100 | 0.159 | Contact Map |
| 4i3fA | 1 | 0.9336 | 100 | 0.167 | Contact Map |
| 1u2eA | 4 | 0.9965 | 100 | 0.172 | Contact Map |
| 4lxhA | 1 | 0.9441 | 100 | 0.18 | Contact Map |
| 1j1iA | 1 | 0.8916 | 100 | 0.191 | Contact Map |
| 4inzA | 2 | 0.9231 | 100 | 0.203 | Contact Map |
| 1c4xA | 1 | 0.9441 | 100 | 0.208 | Contact Map |
| 4pw0A | 1 | 0.9196 | 100 | 0.209 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)