| wdoutCA |
| ID: | 1382151343 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 322 (322) | ||
| Sequences: | 934 (874.8) | ||
| Seq/Len: | 2.901 | ||
| Nf(neff/√len): | 48.8 |
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: 2.901).
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 |
| 31_V | 45_V | 3.874 | 1.00 |
| 128_E | 144_I | 3.221 | 1.00 |
| 25_R | 127_G | 3.150 | 1.00 |
| 121_E | 151_R | 3.131 | 1.00 |
| 277_E | 296_G | 3.023 | 1.00 |
| 147_A | 165_D | 2.976 | 1.00 |
| 167_D | 170_E | 2.975 | 1.00 |
| 148_G | 166_T | 2.828 | 1.00 |
| 159_L | 171_R | 2.623 | 1.00 |
| 122_D | 128_E | 2.614 | 1.00 |
| 29_D | 130_L | 2.503 | 1.00 |
| 149_G | 165_D | 2.420 | 1.00 |
| 7_E | 10_T | 2.294 | 1.00 |
| 120_E | 142_M | 2.287 | 1.00 |
| 128_E | 146_T | 2.252 | 1.00 |
| 27_V | 45_V | 2.225 | 1.00 |
| 122_D | 163_L | 2.147 | 1.00 |
| 162_V | 186_E | 2.078 | 1.00 |
| 119_M | 145_E | 2.064 | 1.00 |
| 152_F | 166_T | 2.052 | 1.00 |
| 13_Y | 19_Q | 2.027 | 1.00 |
| 148_G | 171_R | 2.027 | 1.00 |
| 159_L | 172_E | 1.923 | 0.99 |
| 118_V | 156_I | 1.906 | 0.99 |
| 156_I | 219_L | 1.855 | 0.99 |
| 134_L | 208_L | 1.838 | 0.99 |
| 242_E | 268_V | 1.834 | 0.99 |
| 121_E | 163_L | 1.810 | 0.99 |
| 13_Y | 16_V | 1.800 | 0.99 |
| 101_D | 104_I | 1.790 | 0.99 |
| 156_I | 215_I | 1.785 | 0.99 |
| 131_I | 211_M | 1.780 | 0.99 |
| 192_A | 210_R | 1.760 | 0.99 |
| 197_E | 216_D | 1.756 | 0.99 |
| 28_Q | 50_E | 1.743 | 0.99 |
| 166_T | 174_Q | 1.710 | 0.98 |
| 163_L | 166_T | 1.692 | 0.98 |
| 265_G | 269_E | 1.676 | 0.98 |
| 298_G | 301_I | 1.666 | 0.98 |
| 21_R | 185_A | 1.660 | 0.98 |
| 201_H | 221_L | 1.646 | 0.98 |
| 20_S | 24_I | 1.602 | 0.97 |
| 27_V | 49_T | 1.566 | 0.97 |
| 12_Q | 15_T | 1.561 | 0.97 |
| 161_G | 169_L | 1.555 | 0.96 |
| 145_E | 151_R | 1.524 | 0.96 |
| 194_E | 197_E | 1.497 | 0.95 |
| 261_D | 305_V | 1.491 | 0.95 |
| 76_D | 79_E | 1.477 | 0.95 |
| 170_E | 174_Q | 1.464 | 0.95 |
| 123_H | 206_Q | 1.454 | 0.94 |
| 28_Q | 49_T | 1.444 | 0.94 |
| 30_T | 130_L | 1.437 | 0.94 |
| 26_I | 130_L | 1.434 | 0.94 |
| 176_K | 181_N | 1.431 | 0.94 |
| 47_V | 126_R | 1.411 | 0.93 |
| 270_D | 273_Q | 1.409 | 0.93 |
| 210_R | 214_L | 1.406 | 0.93 |
| 159_L | 163_L | 1.405 | 0.93 |
| 48_D | 126_R | 1.395 | 0.92 |
| 132_E | 136_S | 1.377 | 0.92 |
| 120_E | 131_I | 1.354 | 0.91 |
| 172_E | 200_H | 1.344 | 0.91 |
| 122_D | 183_L | 1.318 | 0.89 |
| 21_R | 57_V | 1.315 | 0.89 |
| 123_H | 160_D | 1.301 | 0.89 |
| 163_L | 171_R | 1.294 | 0.88 |
| 147_A | 150_E | 1.294 | 0.88 |
| 203_S | 210_R | 1.287 | 0.88 |
| 145_E | 150_E | 1.281 | 0.87 |
| 19_Q | 104_I | 1.281 | 0.87 |
| 128_E | 163_L | 1.278 | 0.87 |
| 195_N | 203_S | 1.262 | 0.86 |
| 26_I | 124_V | 1.259 | 0.86 |
| 288_Y | 291_A | 1.255 | 0.86 |
| 13_Y | 17_V | 1.246 | 0.85 |
| 152_F | 171_R | 1.242 | 0.85 |
| 48_D | 51_A | 1.233 | 0.85 |
| 45_V | 49_T | 1.230 | 0.84 |
| 193_M | 196_C | 1.229 | 0.84 |
| 7_E | 11_Q | 1.218 | 0.84 |
| 158_L | 218_V | 1.215 | 0.83 |
| 311_I | 318_R | 1.215 | 0.83 |
| 149_G | 166_T | 1.209 | 0.83 |
| 19_Q | 314_T | 1.207 | 0.83 |
| 26_I | 127_G | 1.206 | 0.83 |
| 158_L | 183_L | 1.204 | 0.83 |
| 176_K | 220_S | 1.199 | 0.82 |
| 166_T | 171_R | 1.195 | 0.82 |
| 51_A | 124_V | 1.192 | 0.82 |
| 202_D | 214_L | 1.191 | 0.82 |
| 170_E | 173_R | 1.178 | 0.81 |
| 194_E | 198_S | 1.172 | 0.80 |
| 125_E | 128_E | 1.166 | 0.80 |
| 287_G | 291_A | 1.165 | 0.80 |
| 152_F | 174_Q | 1.161 | 0.79 |
| 26_I | 126_R | 1.161 | 0.79 |
| 157_S | 175_L | 1.156 | 0.79 |
| 47_V | 83_Q | 1.154 | 0.79 |
| 17_V | 21_R | 1.143 | 0.78 |
| 160_D | 206_Q | 1.141 | 0.78 |
| 185_A | 203_S | 1.129 | 0.77 |
| 17_V | 20_S | 1.125 | 0.76 |
| 148_G | 165_D | 1.124 | 0.76 |
| 271_D | 275_I | 1.123 | 0.76 |
| 289_S | 292_A | 1.123 | 0.76 |
| 121_E | 145_E | 1.116 | 0.76 |
| 191_L | 201_H | 1.112 | 0.75 |
| 55_L | 184_N | 1.108 | 0.75 |
| 17_V | 60_S | 1.107 | 0.75 |
| 196_C | 202_D | 1.096 | 0.74 |
| 46_E | 157_S | 1.091 | 0.73 |
| 152_F | 165_D | 1.090 | 0.73 |
| 186_E | 191_L | 1.088 | 0.73 |
| 262_L | 268_V | 1.072 | 0.71 |
| 312_E | 317_A | 1.069 | 0.71 |
| 21_R | 52_G | 1.066 | 0.71 |
| 26_I | 48_D | 1.064 | 0.71 |
| 189_L | 193_M | 1.064 | 0.71 |
| 119_M | 151_R | 1.063 | 0.70 |
| 292_A | 295_T | 1.055 | 0.70 |
| 76_D | 96_Y | 1.053 | 0.69 |
| 20_S | 52_G | 1.053 | 0.69 |
| 239_Q | 252_G | 1.052 | 0.69 |
| 44_E | 126_R | 1.051 | 0.69 |
| 135_L | 215_I | 1.047 | 0.69 |
| 217_D | 221_L | 1.040 | 0.68 |
| 132_E | 144_I | 1.036 | 0.68 |
| 157_S | 181_N | 1.036 | 0.68 |
| 135_L | 142_M | 1.036 | 0.68 |
| 19_Q | 61_V | 1.033 | 0.67 |
| 168_R | 206_Q | 1.031 | 0.67 |
| 19_Q | 162_V | 1.030 | 0.67 |
| 13_Y | 22_A | 1.028 | 0.67 |
| 191_L | 195_N | 1.025 | 0.66 |
| 58_E | 104_I | 1.024 | 0.66 |
| 118_V | 215_I | 1.022 | 0.66 |
| 273_Q | 281_G | 1.021 | 0.66 |
| 214_L | 316_S | 1.018 | 0.66 |
| 148_G | 152_F | 1.017 | 0.66 |
| 15_T | 19_Q | 1.015 | 0.65 |
| 118_V | 140_F | 1.013 | 0.65 |
| 60_S | 65_Q | 1.013 | 0.65 |
| 120_E | 135_L | 1.004 | 0.64 |
| 152_F | 175_L | 1.002 | 0.64 |
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 | |
| 3r0jA | 2 | 0.6304 | 99.9 | 0.624 | Contact Map |
| 2gwrA | 1 | 0.6335 | 99.9 | 0.626 | Contact Map |
| 1ys7A | 2 | 0.6398 | 99.9 | 0.633 | Contact Map |
| 1kgsA | 1 | 0.6149 | 99.9 | 0.636 | Contact Map |
| 2oqrA | 1 | 0.6366 | 99.9 | 0.637 | Contact Map |
| 4b09A | 12 | 0.5901 | 99.9 | 0.643 | Contact Map |
| 1p2fA | 1 | 0.6118 | 99.9 | 0.652 | Contact Map |
| 3q9sA | 1 | 0.5932 | 99.9 | 0.661 | Contact Map |
| 2hqrA | 2 | 0.6056 | 99.9 | 0.662 | Contact Map |
| 1yioA | 1 | 0.5683 | 99.8 | 0.7 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)