| FAK_2 |
| ID: | 1501771376 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 293 (275) | ||
| Sequences: | 8378 (5061.7) | ||
| Seq/Len: | 30.465 | ||
| Nf(neff/√len): | 305.2 |
Jackhmmer Results: (2016_04)
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: 30.465).
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 |
| 141_L | 154_I | 3.480 | 1.00 |
| 134_A | 219_M | 3.400 | 1.00 |
| 134_A | 222_I | 3.367 | 1.00 |
| 45_Q | 57_A | 3.107 | 1.00 |
| 267_A | 272_R | 3.106 | 1.00 |
| 238_V | 241_R | 3.009 | 1.00 |
| 140_A | 169_L | 2.993 | 1.00 |
| 264_K | 282_Q | 2.779 | 1.00 |
| 136_Q | 167_V | 2.768 | 1.00 |
| 33_R | 45_Q | 2.623 | 1.00 |
| 46_G | 60_I | 2.557 | 1.00 |
| 107_E | 168_K | 2.500 | 1.00 |
| 34_C | 42_D | 2.454 | 1.00 |
| 238_V | 242_I | 2.353 | 1.00 |
| 34_C | 37_E | 2.317 | 1.00 |
| 141_L | 276_F | 2.308 | 1.00 |
| 238_V | 243_E | 2.277 | 1.00 |
| 160_L | 170_G | 2.264 | 1.00 |
| 239_I | 242_I | 2.210 | 1.00 |
| 269_D | 272_R | 2.166 | 1.00 |
| 110_T | 163_A | 2.132 | 1.00 |
| 154_I | 218_C | 2.123 | 1.00 |
| 212_V | 276_F | 2.062 | 1.00 |
| 86_D | 92_K | 2.030 | 1.00 |
| 46_G | 58_V | 2.005 | 1.00 |
| 250_M | 255_P | 1.964 | 1.00 |
| 91_V | 109_C | 1.950 | 1.00 |
| 136_Q | 166_C | 1.947 | 1.00 |
| 261_L | 282_Q | 1.927 | 1.00 |
| 261_L | 279_L | 1.909 | 1.00 |
| 142_A | 277_T | 1.864 | 1.00 |
| 135_Y | 280_K | 1.859 | 1.00 |
| 197_A | 210_S | 1.838 | 1.00 |
| 126_D | 129_S | 1.812 | 1.00 |
| 132_L | 136_Q | 1.766 | 1.00 |
| 138_S | 215_F | 1.756 | 1.00 |
| 223_L | 258_L | 1.711 | 1.00 |
| 137_L | 154_I | 1.700 | 1.00 |
| 142_A | 146_S | 1.693 | 1.00 |
| 45_Q | 108_L | 1.683 | 1.00 |
| 250_M | 254_C | 1.666 | 1.00 |
| 243_E | 246_E | 1.665 | 1.00 |
| 113_E | 116_S | 1.657 | 1.00 |
| 155_A | 192_P | 1.650 | 1.00 |
| 159_V | 167_V | 1.626 | 1.00 |
| 139_T | 284_S | 1.621 | 1.00 |
| 276_F | 279_L | 1.593 | 1.00 |
| 85_F | 149_F | 1.557 | 1.00 |
| 47_I | 55_A | 1.543 | 1.00 |
| 159_V | 218_C | 1.538 | 1.00 |
| 47_I | 57_A | 1.527 | 1.00 |
| 142_A | 280_K | 1.519 | 1.00 |
| 248_L | 251_P | 1.515 | 1.00 |
| 109_C | 162_S | 1.507 | 1.00 |
| 127_L | 255_P | 1.469 | 1.00 |
| 43_V | 59_A | 1.456 | 1.00 |
| 158_N | 171_D | 1.438 | 1.00 |
| 111_L | 165_D | 1.430 | 1.00 |
| 215_F | 276_F | 1.412 | 1.00 |
| 139_T | 280_K | 1.401 | 0.99 |
| 153_D | 158_N | 1.370 | 0.99 |
| 162_S | 166_C | 1.366 | 0.99 |
| 135_Y | 139_T | 1.365 | 0.99 |
| 23_E | 28_R | 1.361 | 0.99 |
| 89_H | 139_T | 1.359 | 0.99 |
| 87_H | 143_Y | 1.351 | 0.99 |
| 32_G | 45_Q | 1.349 | 0.99 |
| 247_R | 250_M | 1.340 | 0.99 |
| 115_R | 119_Q | 1.326 | 0.99 |
| 57_A | 108_L | 1.320 | 0.99 |
| 62_T | 101_P | 1.319 | 0.99 |
| 239_I | 243_E | 1.308 | 0.99 |
| 62_T | 103_W | 1.302 | 0.99 |
| 36_G | 43_V | 1.296 | 0.99 |
| 212_V | 265_C | 1.295 | 0.99 |
| 265_C | 279_L | 1.286 | 0.99 |
| 156_A | 218_C | 1.286 | 0.99 |
| 58_V | 105_I | 1.285 | 0.99 |
| 30_E | 47_I | 1.279 | 0.99 |
| 44_H | 62_T | 1.273 | 0.99 |
| 191_L | 196_M | 1.270 | 0.99 |
| 48_Y | 94_I | 1.267 | 0.99 |
| 137_L | 159_V | 1.266 | 0.99 |
| 137_L | 218_C | 1.265 | 0.99 |
| 231_Q | 234_K | 1.260 | 0.99 |
| 227_V | 231_Q | 1.252 | 0.99 |
| 50_S | 56_M | 1.234 | 0.98 |
| 275_R | 278_E | 1.228 | 0.98 |
| 152_R | 206_F | 1.225 | 0.98 |
| 241_R | 246_E | 1.224 | 0.98 |
| 264_K | 278_E | 1.214 | 0.98 |
| 34_C | 44_H | 1.211 | 0.98 |
| 146_S | 277_T | 1.206 | 0.98 |
| 247_R | 251_P | 1.203 | 0.98 |
| 206_F | 210_S | 1.202 | 0.98 |
| 247_R | 254_C | 1.196 | 0.98 |
| 135_Y | 284_S | 1.193 | 0.98 |
| 37_E | 64_K | 1.193 | 0.98 |
| 137_L | 167_V | 1.189 | 0.98 |
| 94_I | 107_E | 1.188 | 0.98 |
| 138_S | 280_K | 1.184 | 0.98 |
| 248_L | 254_C | 1.184 | 0.98 |
| 240_G | 243_E | 1.174 | 0.98 |
| 156_A | 195_W | 1.172 | 0.98 |
| 48_Y | 58_V | 1.170 | 0.97 |
| 131_I | 258_L | 1.154 | 0.97 |
| 248_L | 255_P | 1.151 | 0.97 |
| 112_G | 116_S | 1.148 | 0.97 |
| 153_D | 171_D | 1.143 | 0.97 |
| 141_L | 169_L | 1.139 | 0.97 |
| 195_W | 221_E | 1.132 | 0.97 |
| 262_M | 266_W | 1.098 | 0.96 |
| 217_V | 266_W | 1.097 | 0.96 |
| 238_V | 245_G | 1.097 | 0.96 |
| 91_V | 107_E | 1.096 | 0.96 |
| 197_A | 200_S | 1.095 | 0.96 |
| 63_C | 75_F | 1.093 | 0.96 |
| 219_M | 262_M | 1.091 | 0.96 |
| 231_Q | 248_L | 1.091 | 0.96 |
| 129_S | 165_D | 1.090 | 0.96 |
| 132_L | 166_C | 1.089 | 0.96 |
| 138_S | 279_L | 1.085 | 0.96 |
| 145_E | 276_F | 1.077 | 0.95 |
| 256_P | 260_S | 1.070 | 0.95 |
| 251_P | 254_C | 1.068 | 0.95 |
| 111_L | 162_S | 1.063 | 0.95 |
| 133_Y | 167_V | 1.052 | 0.95 |
| 149_F | 175_S | 1.051 | 0.94 |
| 241_R | 244_N | 1.050 | 0.94 |
| 220_W | 266_W | 1.050 | 0.94 |
| 209_A | 275_R | 1.045 | 0.94 |
| 78_E | 153_D | 1.040 | 0.94 |
| 27_E | 30_E | 1.039 | 0.94 |
| 161_V | 167_V | 1.037 | 0.94 |
| 153_D | 192_P | 1.036 | 0.94 |
| 129_S | 132_L | 1.030 | 0.94 |
| 24_I | 48_Y | 1.026 | 0.94 |
| 135_Y | 283_L | 1.019 | 0.93 |
| 59_A | 171_D | 1.017 | 0.93 |
| 245_G | 248_L | 1.012 | 0.93 |
| 155_A | 158_N | 1.012 | 0.93 |
| 247_R | 255_P | 1.011 | 0.93 |
| 247_R | 252_P | 1.004 | 0.93 |
| 110_T | 162_S | 1.000 | 0.92 |
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 | |
| 2j0jA | 1 | 0.9659 | 100 | 0.205 | Contact Map |
| 4fl3A | 1 | 0.9522 | 100 | 0.232 | Contact Map |
| 4i4eA | 1 | 0.8669 | 100 | 0.24 | Contact Map |
| 4rt7A | 1 | 0 | 100 | 0.24 | Contact Map |
| 4aseA | 1 | 0.9625 | 100 | 0.241 | Contact Map |
| 5a46A | 2 | 0 | 100 | 0.243 | Contact Map |
| 2ozoA | 1 | 0.9283 | 100 | 0.248 | Contact Map |
| 4gt4A | 2 | 0.9044 | 100 | 0.252 | Contact Map |
| 4fyoA | 1 | 0.8908 | 100 | 0.256 | Contact Map |
| 4aszA | 1 | 0.9283 | 100 | 0.256 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)