| mos cathB |
| ID: | 1495695711 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 355 (304) | ||
| Sequences: | 900 (609.1) | ||
| Seq/Len: | 2.961 | ||
| Nf(neff/√len): | 34.9 |
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: 2.961).
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 |
| 94_L | 246_M | 4.404 | 1.00 |
| 312_E | 317_K | 3.954 | 1.00 |
| 49_S | 57_A | 2.739 | 1.00 |
| 94_L | 250_F | 2.733 | 1.00 |
| 319_V | 322_E | 2.590 | 1.00 |
| 293_V | 298_K | 2.520 | 1.00 |
| 127_A | 256_Q | 2.429 | 1.00 |
| 58_G | 269_K | 2.428 | 1.00 |
| 96_D | 293_V | 2.401 | 1.00 |
| 242_E | 246_M | 2.327 | 1.00 |
| 245_I | 255_V | 2.283 | 1.00 |
| 125_V | 129_S | 2.275 | 1.00 |
| 319_V | 324_H | 2.237 | 1.00 |
| 249_I | 255_V | 2.211 | 1.00 |
| 126_S | 256_Q | 2.202 | 1.00 |
| 257_A | 286_V | 2.194 | 1.00 |
| 151_D | 229_R | 2.156 | 1.00 |
| 54_T | 274_R | 2.133 | 1.00 |
| 45_A | 49_S | 2.090 | 1.00 |
| 42_A | 46_S | 2.073 | 1.00 |
| 323_N | 329_E | 2.063 | 1.00 |
| 275_H | 278_G | 2.034 | 1.00 |
| 323_N | 328_E | 2.034 | 1.00 |
| 260_H | 280_L | 2.032 | 1.00 |
| 255_V | 331_I | 2.013 | 1.00 |
| 150_L | 196_P | 2.006 | 1.00 |
| 113_I | 303_A | 1.994 | 1.00 |
| 122_C | 284_H | 1.960 | 1.00 |
| 302_V | 318_I | 1.959 | 1.00 |
| 321_G | 328_E | 1.942 | 0.99 |
| 115_D | 307_G | 1.931 | 0.99 |
| 44_L | 48_F | 1.929 | 0.99 |
| 257_A | 288_L | 1.890 | 0.99 |
| 94_L | 242_E | 1.876 | 0.99 |
| 294_E | 317_K | 1.872 | 0.99 |
| 107_C | 136_C | 1.831 | 0.99 |
| 272_I | 312_E | 1.823 | 0.99 |
| 272_I | 317_K | 1.813 | 0.99 |
| 320_R | 328_E | 1.795 | 0.99 |
| 242_E | 298_K | 1.793 | 0.99 |
| 130_A | 172_W | 1.783 | 0.99 |
| 100_A | 110_L | 1.774 | 0.99 |
| 156_C | 160_G | 1.768 | 0.99 |
| 172_W | 256_Q | 1.724 | 0.98 |
| 288_L | 331_I | 1.702 | 0.98 |
| 288_L | 302_V | 1.685 | 0.98 |
| 202_I | 307_G | 1.684 | 0.98 |
| 152_L | 180_L | 1.674 | 0.98 |
| 112_E | 146_I | 1.671 | 0.98 |
| 42_A | 59_S | 1.655 | 0.98 |
| 303_A | 315_F | 1.652 | 0.98 |
| 301_L | 317_K | 1.606 | 0.97 |
| 243_R | 246_M | 1.596 | 0.97 |
| 122_C | 285_A | 1.595 | 0.97 |
| 156_C | 159_C | 1.563 | 0.97 |
| 249_I | 288_L | 1.549 | 0.96 |
| 274_R | 319_V | 1.475 | 0.95 |
| 308_R | 313_N | 1.475 | 0.95 |
| 287_K | 303_A | 1.454 | 0.94 |
| 245_I | 331_I | 1.448 | 0.94 |
| 316_F | 321_G | 1.442 | 0.94 |
| 320_R | 323_N | 1.424 | 0.94 |
| 250_F | 291_W | 1.412 | 0.93 |
| 246_M | 250_F | 1.387 | 0.92 |
| 201_R | 309_E | 1.381 | 0.92 |
| 117_G | 197_I | 1.364 | 0.92 |
| 135_W | 147_F | 1.354 | 0.91 |
| 247_E | 251_I | 1.346 | 0.91 |
| 98_F | 104_W | 1.344 | 0.91 |
| 258_A | 285_A | 1.341 | 0.91 |
| 151_D | 193_H | 1.326 | 0.90 |
| 134_R | 137_V | 1.324 | 0.90 |
| 224_D | 228_D | 1.323 | 0.90 |
| 121_S | 195_Y | 1.323 | 0.90 |
| 264_D | 273_Y | 1.322 | 0.90 |
| 257_A | 331_I | 1.308 | 0.89 |
| 148_G | 155_C | 1.299 | 0.89 |
| 112_E | 185_P | 1.297 | 0.89 |
| 101_R | 301_L | 1.296 | 0.89 |
| 139_S | 338_F | 1.294 | 0.89 |
| 249_I | 291_W | 1.261 | 0.87 |
| 120_G | 165_G | 1.247 | 0.86 |
| 45_A | 59_S | 1.233 | 0.85 |
| 116_Q | 119_C | 1.229 | 0.85 |
| 100_A | 104_W | 1.228 | 0.85 |
| 120_G | 284_H | 1.226 | 0.85 |
| 162_G | 209_T | 1.223 | 0.84 |
| 262_Y | 318_I | 1.217 | 0.84 |
| 247_E | 250_F | 1.204 | 0.83 |
| 248_E | 252_N | 1.203 | 0.83 |
| 145_F | 182_S | 1.190 | 0.82 |
| 316_F | 328_E | 1.186 | 0.82 |
| 114_R | 125_V | 1.184 | 0.82 |
| 203_P | 309_E | 1.181 | 0.82 |
| 168_L | 258_A | 1.181 | 0.82 |
| 104_W | 133_D | 1.177 | 0.81 |
| 262_Y | 273_Y | 1.176 | 0.81 |
| 97_T | 102_E | 1.175 | 0.81 |
| 248_E | 333_A | 1.174 | 0.81 |
| 288_L | 327_I | 1.171 | 0.81 |
| 117_G | 207_E | 1.161 | 0.80 |
| 255_V | 288_L | 1.157 | 0.80 |
| 318_I | 324_H | 1.155 | 0.79 |
| 272_I | 301_L | 1.154 | 0.79 |
| 114_R | 120_G | 1.152 | 0.79 |
| 324_H | 328_E | 1.152 | 0.79 |
| 42_A | 45_A | 1.149 | 0.79 |
| 176_V | 235_A | 1.141 | 0.78 |
| 131_M | 147_F | 1.130 | 0.77 |
| 116_Q | 120_G | 1.124 | 0.77 |
| 131_M | 175_W | 1.114 | 0.76 |
| 289_L | 315_F | 1.114 | 0.76 |
| 125_V | 128_A | 1.113 | 0.76 |
| 147_F | 182_S | 1.108 | 0.75 |
| 258_A | 283_G | 1.106 | 0.75 |
| 220_Y | 228_D | 1.102 | 0.75 |
| 99_D | 107_C | 1.099 | 0.75 |
| 266_H | 281_S | 1.099 | 0.75 |
| 101_R | 107_C | 1.092 | 0.74 |
| 223_T | 227_Q | 1.085 | 0.73 |
| 110_L | 287_K | 1.083 | 0.73 |
| 56_R | 270_S | 1.083 | 0.73 |
| 135_W | 145_F | 1.079 | 0.73 |
| 263_L | 281_S | 1.076 | 0.72 |
| 116_Q | 284_H | 1.075 | 0.72 |
| 163_C | 166_G | 1.074 | 0.72 |
| 123_W | 171_A | 1.073 | 0.72 |
| 128_A | 180_L | 1.071 | 0.72 |
| 135_W | 143_E | 1.063 | 0.71 |
| 111_R | 287_K | 1.047 | 0.69 |
| 133_D | 136_C | 1.045 | 0.69 |
| 138_R | 252_N | 1.039 | 0.69 |
| 130_A | 256_Q | 1.039 | 0.69 |
| 181_S | 193_H | 1.038 | 0.68 |
| 69_S | 73_M | 1.033 | 0.68 |
| 54_T | 272_I | 1.024 | 0.67 |
| 262_Y | 275_H | 1.023 | 0.67 |
| 100_A | 249_I | 1.019 | 0.66 |
| 249_I | 257_A | 1.019 | 0.66 |
| 246_M | 320_R | 1.019 | 0.66 |
| 289_L | 301_L | 1.006 | 0.65 |
| 165_G | 284_H | 1.004 | 0.65 |
| 102_E | 105_P | 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 | |
| 3pbhA | 1 | 0.8479 | 100 | 0.367 | Contact Map |
| 4i04A | 4 | 0.8366 | 100 | 0.369 | Contact Map |
| 3hhiA | 2 | 0.6986 | 100 | 0.402 | Contact Map |
| 4i05A | 1 | 0.7493 | 100 | 0.42 | Contact Map |
| 3cbjA | 1 | 0.7014 | 100 | 0.431 | Contact Map |
| 3qsdA | 1 | 0.6873 | 100 | 0.431 | Contact Map |
| 3pdfA | 1 | 0.6704 | 100 | 0.458 | Contact Map |
| 3qj3A | 2 | 0.8338 | 100 | 0.481 | Contact Map |
| 3qt4A | 1 | 0.8028 | 100 | 0.484 | Contact Map |
| 2o6xA | 1 | 0.8197 | 100 | 0.486 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)