| ParB |
| ID: | 1416571248 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 282 (278) | ||
| Sequences: | 1526 (1122.8) | ||
| Seq/Len: | 5.489 | ||
| Nf(neff/√len): | 67.3 |
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: 5.489).
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 |
| 198_V | 208_L | 3.779 | 1.00 |
| 148_S | 151_H | 3.763 | 1.00 |
| 138_Q | 153_A | 3.608 | 1.00 |
| 168_L | 195_V | 3.490 | 1.00 |
| 25_E | 91_T | 3.485 | 1.00 |
| 197_K | 201_E | 3.402 | 1.00 |
| 74_I | 81_F | 3.320 | 1.00 |
| 31_L | 74_I | 2.921 | 1.00 |
| 128_D | 132_K | 2.717 | 1.00 |
| 63_L | 92_V | 2.716 | 1.00 |
| 129_S | 133_H | 2.665 | 1.00 |
| 100_S | 103_L | 2.593 | 1.00 |
| 203_L | 211_L | 2.534 | 1.00 |
| 26_I | 94_A | 2.429 | 1.00 |
| 63_L | 74_I | 2.372 | 1.00 |
| 60_L | 64_I | 2.349 | 1.00 |
| 28_I | 81_F | 2.348 | 1.00 |
| 207_Q | 210_Q | 2.296 | 1.00 |
| 51_K | 86_L | 2.279 | 1.00 |
| 178_H | 205_V | 2.195 | 1.00 |
| 59_I | 84_A | 2.187 | 1.00 |
| 32_R | 71_G | 2.166 | 1.00 |
| 168_L | 199_I | 2.166 | 1.00 |
| 81_F | 85_K | 2.145 | 1.00 |
| 66_R | 101_E | 2.128 | 1.00 |
| 32_R | 73_D | 2.124 | 1.00 |
| 121_L | 166_Q | 2.123 | 1.00 |
| 48_A | 52_E | 2.080 | 1.00 |
| 164_N | 192_E | 1.987 | 1.00 |
| 75_V | 99_L | 1.982 | 1.00 |
| 272_R | 276_L | 1.918 | 1.00 |
| 194_L | 211_L | 1.918 | 1.00 |
| 150_P | 153_A | 1.898 | 1.00 |
| 253_R | 264_F | 1.896 | 1.00 |
| 47_L | 86_L | 1.884 | 1.00 |
| 48_A | 86_L | 1.857 | 1.00 |
| 181_T | 208_L | 1.809 | 1.00 |
| 99_L | 107_I | 1.787 | 1.00 |
| 165_I | 195_V | 1.772 | 1.00 |
| 155_H | 176_M | 1.770 | 1.00 |
| 178_H | 181_T | 1.718 | 1.00 |
| 46_A | 116_E | 1.700 | 1.00 |
| 26_I | 65_V | 1.688 | 1.00 |
| 269_D | 272_R | 1.685 | 1.00 |
| 139_E | 143_K | 1.680 | 1.00 |
| 181_T | 205_V | 1.675 | 1.00 |
| 44_D | 86_L | 1.660 | 1.00 |
| 31_L | 92_V | 1.642 | 0.99 |
| 125_Q | 166_Q | 1.641 | 0.99 |
| 267_N | 271_D | 1.631 | 0.99 |
| 140_Q | 143_K | 1.619 | 0.99 |
| 230_K | 238_E | 1.619 | 0.99 |
| 131_L | 141_L | 1.611 | 0.99 |
| 169_I | 179_G | 1.592 | 0.99 |
| 176_M | 180_R | 1.587 | 0.99 |
| 66_R | 73_D | 1.566 | 0.99 |
| 63_L | 94_A | 1.565 | 0.99 |
| 185_L | 194_L | 1.564 | 0.99 |
| 198_V | 203_L | 1.555 | 0.99 |
| 43_D | 46_A | 1.552 | 0.99 |
| 169_I | 174_L | 1.466 | 0.99 |
| 44_D | 48_A | 1.456 | 0.98 |
| 65_V | 94_A | 1.454 | 0.98 |
| 162_P | 191_L | 1.454 | 0.98 |
| 84_A | 87_A | 1.447 | 0.98 |
| 195_V | 199_I | 1.423 | 0.98 |
| 38_P | 108_A | 1.419 | 0.98 |
| 240_Y | 278_S | 1.415 | 0.98 |
| 162_P | 192_E | 1.403 | 0.98 |
| 34_N | 104_M | 1.401 | 0.98 |
| 31_L | 65_V | 1.378 | 0.98 |
| 208_L | 212_I | 1.367 | 0.97 |
| 141_L | 152_I | 1.364 | 0.97 |
| 204_N | 207_Q | 1.348 | 0.97 |
| 59_I | 93_P | 1.343 | 0.97 |
| 8_G | 12_L | 1.332 | 0.97 |
| 174_L | 195_V | 1.331 | 0.97 |
| 5_L | 8_G | 1.309 | 0.96 |
| 27_K | 30_D | 1.283 | 0.96 |
| 5_L | 12_L | 1.259 | 0.95 |
| 151_H | 155_H | 1.258 | 0.95 |
| 52_E | 56_Q | 1.255 | 0.95 |
| 210_Q | 213_Q | 1.253 | 0.95 |
| 163_E | 166_Q | 1.253 | 0.95 |
| 31_L | 94_A | 1.249 | 0.95 |
| 64_I | 95_I | 1.247 | 0.95 |
| 196_Q | 200_A | 1.241 | 0.95 |
| 258_G | 264_F | 1.238 | 0.95 |
| 59_I | 92_V | 1.236 | 0.95 |
| 203_L | 207_Q | 1.233 | 0.94 |
| 247_T | 262_I | 1.208 | 0.94 |
| 57_H | 103_L | 1.204 | 0.94 |
| 30_D | 71_G | 1.189 | 0.93 |
| 6_G | 12_L | 1.184 | 0.93 |
| 169_I | 175_S | 1.176 | 0.92 |
| 265_F | 269_D | 1.171 | 0.92 |
| 57_H | 106_E | 1.168 | 0.92 |
| 271_D | 275_E | 1.166 | 0.92 |
| 190_K | 193_P | 1.163 | 0.92 |
| 56_Q | 143_K | 1.142 | 0.91 |
| 66_R | 104_M | 1.141 | 0.91 |
| 203_L | 208_L | 1.138 | 0.91 |
| 106_E | 144_R | 1.132 | 0.90 |
| 167_Q | 171_E | 1.118 | 0.90 |
| 142_A | 152_I | 1.109 | 0.89 |
| 125_Q | 170_A | 1.102 | 0.89 |
| 206_R | 209_E | 1.088 | 0.88 |
| 59_I | 63_L | 1.078 | 0.87 |
| 24_E | 96_V | 1.073 | 0.87 |
| 141_L | 145_L | 1.071 | 0.87 |
| 176_M | 181_T | 1.071 | 0.87 |
| 241_L | 249_V | 1.070 | 0.87 |
| 35_P | 73_D | 1.064 | 0.86 |
| 158_L | 166_Q | 1.057 | 0.86 |
| 239_S | 243_N | 1.056 | 0.86 |
| 168_L | 173_T | 1.051 | 0.85 |
| 54_V | 84_A | 1.048 | 0.85 |
| 148_S | 155_H | 1.040 | 0.85 |
| 33_P | 81_F | 1.038 | 0.85 |
| 245_F | 262_I | 1.037 | 0.84 |
| 168_L | 174_L | 1.032 | 0.84 |
| 119_S | 204_N | 1.032 | 0.84 |
| 131_L | 153_A | 1.028 | 0.84 |
| 27_K | 91_T | 1.027 | 0.84 |
| 208_L | 211_L | 1.021 | 0.83 |
| 34_N | 108_A | 1.016 | 0.83 |
| 6_G | 9_I | 1.014 | 0.83 |
| 264_F | 270_L | 1.013 | 0.83 |
| 123_E | 147_K | 1.013 | 0.83 |
| 194_L | 215_L | 1.012 | 0.82 |
| 26_I | 31_L | 1.005 | 0.82 |
| 184_G | 212_I | 1.000 | 0.81 |
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 | |
| 1vz0A | 8 | 0.6809 | 100 | 0.428 | Contact Map |
| 1r71A | 4 | 0.3901 | 100 | 0.677 | Contact Map |
| 3mkyB | 2 | 0.3865 | 100 | 0.698 | Contact Map |
| 1vk1A | 1 | 0.6879 | 99.9 | 0.754 | Contact Map |
| 1yzsA | 1 | 0.383 | 99.9 | 0.767 | Contact Map |
| 1xw3A | 1 | 0.3617 | 99.9 | 0.77 | Contact Map |
| 1zx4A | 2 | 0.5709 | 97.5 | 0.92 | Contact Map |
| 3vwbA | 1 | 0.3936 | 95.8 | 0.934 | Contact Map |
| 2hwjA | 6 | 0.5816 | 92.5 | 0.944 | Contact Map |
| 3frwA | 8 | 0.3404 | 91.6 | 0.945 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)