| unknown |
| ID: | 1490262091 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 373 (337) | ||
| Sequences: | 448 (358.6) | ||
| Seq/Len: | 1.329 | ||
| Nf(neff/√len): | 19.5 |
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: 1.329).
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 |
| 39_Y | 42_Y | 4.029 | 1.00 |
| 39_Y | 43_N | 2.241 | 0.99 |
| 302_D | 307_A | 1.725 | 0.93 |
| 60_R | 95_Q | 1.719 | 0.92 |
| 39_Y | 44_K | 1.705 | 0.92 |
| 303_L | 306_W | 1.697 | 0.92 |
| 262_H | 265_W | 1.692 | 0.92 |
| 287_T | 294_V | 1.621 | 0.89 |
| 168_P | 171_Y | 1.560 | 0.87 |
| 287_T | 291_G | 1.546 | 0.86 |
| 299_L | 304_E | 1.545 | 0.86 |
| 261_K | 264_A | 1.523 | 0.85 |
| 199_S | 206_C | 1.515 | 0.84 |
| 100_I | 133_P | 1.498 | 0.84 |
| 290_E | 294_V | 1.479 | 0.82 |
| 300_D | 303_L | 1.476 | 0.82 |
| 57_D | 95_Q | 1.458 | 0.81 |
| 265_W | 268_C | 1.448 | 0.81 |
| 83_A | 115_A | 1.425 | 0.79 |
| 156_E | 216_R | 1.423 | 0.79 |
| 258_T | 262_H | 1.422 | 0.79 |
| 264_A | 268_C | 1.409 | 0.78 |
| 143_L | 172_A | 1.387 | 0.76 |
| 21_R | 25_W | 1.378 | 0.76 |
| 61_C | 99_S | 1.376 | 0.76 |
| 242_C | 246_S | 1.376 | 0.76 |
| 42_Y | 45_T | 1.376 | 0.76 |
| 262_H | 266_E | 1.374 | 0.76 |
| 57_D | 93_Y | 1.370 | 0.75 |
| 291_G | 295_K | 1.350 | 0.74 |
| 255_P | 260_R | 1.344 | 0.73 |
| 250_W | 254_P | 1.344 | 0.73 |
| 299_L | 302_D | 1.343 | 0.73 |
| 54_I | 92_V | 1.333 | 0.72 |
| 154_D | 216_R | 1.330 | 0.72 |
| 313_A | 316_R | 1.328 | 0.72 |
| 309_T | 313_A | 1.322 | 0.72 |
| 176_F | 200_S | 1.319 | 0.71 |
| 291_G | 298_L | 1.315 | 0.71 |
| 126_Y | 176_F | 1.313 | 0.71 |
| 259_S | 266_E | 1.310 | 0.71 |
| 60_R | 93_Y | 1.304 | 0.70 |
| 258_T | 261_K | 1.296 | 0.69 |
| 258_T | 266_E | 1.292 | 0.69 |
| 262_H | 269_E | 1.272 | 0.67 |
| 302_D | 306_W | 1.272 | 0.67 |
| 177_L | 212_L | 1.265 | 0.67 |
| 88_N | 145_V | 1.264 | 0.67 |
| 319_R | 323_I | 1.260 | 0.66 |
| 305_W | 309_T | 1.254 | 0.66 |
| 257_V | 260_R | 1.250 | 0.65 |
| 300_D | 305_W | 1.244 | 0.65 |
| 340_R | 343_A | 1.240 | 0.64 |
| 170_L | 174_P | 1.232 | 0.64 |
| 241_W | 249_I | 1.230 | 0.63 |
| 262_H | 268_C | 1.226 | 0.63 |
| 314_E | 319_R | 1.217 | 0.62 |
| 157_L | 219_I | 1.215 | 0.62 |
| 301_S | 307_A | 1.214 | 0.62 |
| 63_Q | 94_W | 1.213 | 0.62 |
| 84_F | 123_V | 1.208 | 0.61 |
| 55_D | 78_R | 1.195 | 0.60 |
| 176_F | 208_A | 1.188 | 0.59 |
| 66_R | 100_I | 1.182 | 0.59 |
| 117_S | 193_W | 1.177 | 0.58 |
| 61_C | 94_W | 1.175 | 0.58 |
| 221_S | 231_F | 1.172 | 0.58 |
| 238_D | 246_S | 1.170 | 0.58 |
| 63_Q | 68_L | 1.163 | 0.57 |
| 309_T | 312_L | 1.162 | 0.57 |
| 254_P | 257_V | 1.161 | 0.57 |
| 93_Y | 96_G | 1.158 | 0.57 |
| 323_I | 326_D | 1.157 | 0.56 |
| 105_L | 116_F | 1.157 | 0.56 |
| 164_I | 227_C | 1.156 | 0.56 |
| 255_P | 258_T | 1.156 | 0.56 |
| 304_E | 307_A | 1.154 | 0.56 |
| 258_T | 265_W | 1.148 | 0.56 |
| 56_V | 170_L | 1.144 | 0.55 |
| 294_V | 299_L | 1.143 | 0.55 |
| 259_S | 262_H | 1.142 | 0.55 |
| 321_A | 327_D | 1.139 | 0.55 |
| 314_E | 317_S | 1.137 | 0.54 |
| 146_Y | 208_A | 1.137 | 0.54 |
| 313_A | 317_S | 1.133 | 0.54 |
| 181_T | 197_L | 1.130 | 0.54 |
| 263_D | 266_E | 1.128 | 0.54 |
| 223_D | 226_D | 1.127 | 0.53 |
| 38_V | 42_Y | 1.126 | 0.53 |
| 284_V | 287_T | 1.124 | 0.53 |
| 320_V | 328_V | 1.124 | 0.53 |
| 17_P | 21_R | 1.124 | 0.53 |
| 301_S | 309_T | 1.120 | 0.53 |
| 280_I | 283_H | 1.110 | 0.52 |
| 329_M | 333_Q | 1.110 | 0.52 |
| 257_V | 262_H | 1.109 | 0.52 |
| 320_V | 325_F | 1.108 | 0.52 |
| 87_A | 120_N | 1.102 | 0.51 |
| 316_R | 319_R | 1.101 | 0.51 |
| 311_P | 316_R | 1.096 | 0.50 |
| 297_L | 302_D | 1.094 | 0.50 |
| 277_Q | 286_D | 1.091 | 0.50 |
| 288_T | 292_N | 1.090 | 0.50 |
| 172_A | 193_W | 1.090 | 0.50 |
| 294_V | 298_L | 1.088 | 0.50 |
| 300_D | 307_A | 1.087 | 0.49 |
| 288_T | 291_G | 1.087 | 0.49 |
| 62_H | 99_S | 1.086 | 0.49 |
| 314_E | 318_N | 1.086 | 0.49 |
| 264_A | 267_A | 1.082 | 0.49 |
| 68_L | 73_G | 1.080 | 0.49 |
| 253_T | 258_T | 1.079 | 0.49 |
| 320_V | 324_R | 1.079 | 0.49 |
| 269_E | 272_A | 1.078 | 0.49 |
| 82_K | 86_S | 1.078 | 0.49 |
| 317_S | 323_I | 1.078 | 0.49 |
| 257_V | 266_E | 1.077 | 0.48 |
| 302_D | 305_W | 1.076 | 0.48 |
| 333_Q | 336_M | 1.073 | 0.48 |
| 324_R | 327_D | 1.072 | 0.48 |
| 154_D | 213_Q | 1.071 | 0.48 |
| 325_F | 329_M | 1.070 | 0.48 |
| 178_T | 182_H | 1.069 | 0.48 |
| 63_Q | 73_G | 1.069 | 0.48 |
| 260_R | 264_A | 1.068 | 0.48 |
| 333_Q | 342_D | 1.065 | 0.47 |
| 321_A | 325_F | 1.065 | 0.47 |
| 300_D | 308_K | 1.064 | 0.47 |
| 306_W | 310_P | 1.063 | 0.47 |
| 174_P | 183_V | 1.063 | 0.47 |
| 157_L | 177_L | 1.062 | 0.47 |
| 88_N | 98_D | 1.062 | 0.47 |
| 174_P | 182_H | 1.061 | 0.47 |
| 312_L | 316_R | 1.059 | 0.47 |
| 256_S | 259_S | 1.055 | 0.46 |
| 156_E | 217_S | 1.053 | 0.46 |
| 329_M | 332_D | 1.050 | 0.46 |
| 61_C | 96_G | 1.049 | 0.46 |
| 304_E | 308_K | 1.049 | 0.46 |
| 322_Q | 327_D | 1.049 | 0.46 |
| 324_R | 329_M | 1.048 | 0.46 |
| 306_W | 309_T | 1.048 | 0.46 |
| 319_R | 327_D | 1.047 | 0.45 |
| 243_L | 246_S | 1.045 | 0.45 |
| 73_G | 94_W | 1.042 | 0.45 |
| 335_L | 340_R | 1.040 | 0.45 |
| 238_D | 242_C | 1.039 | 0.45 |
| 162_L | 219_I | 1.038 | 0.45 |
| 100_I | 231_F | 1.037 | 0.44 |
| 326_D | 329_M | 1.035 | 0.44 |
| 303_L | 308_K | 1.035 | 0.44 |
| 253_T | 257_V | 1.033 | 0.44 |
| 13_C | 199_S | 1.032 | 0.44 |
| 337_V | 341_S | 1.031 | 0.44 |
| 296_G | 301_S | 1.029 | 0.44 |
| 304_E | 310_P | 1.028 | 0.44 |
| 288_T | 294_V | 1.028 | 0.44 |
| 39_Y | 45_T | 1.026 | 0.43 |
| 101_F | 119_A | 1.025 | 0.43 |
| 327_D | 332_D | 1.022 | 0.43 |
| 28_L | 234_M | 1.020 | 0.43 |
| 318_N | 324_R | 1.017 | 0.43 |
| 322_Q | 326_D | 1.015 | 0.42 |
| 74_H | 186_F | 1.014 | 0.42 |
| 297_L | 304_E | 1.011 | 0.42 |
| 302_D | 309_T | 1.010 | 0.42 |
| 84_F | 88_N | 1.010 | 0.42 |
| 240_E | 244_A | 1.010 | 0.42 |
| 147_T | 168_P | 1.007 | 0.42 |
| 331_M | 334_Y | 1.007 | 0.42 |
| 88_N | 128_H | 1.005 | 0.41 |
| 88_N | 116_F | 1.005 | 0.41 |
| 50_A | 196_L | 1.004 | 0.41 |
| 327_D | 331_M | 1.003 | 0.41 |
| 81_L | 97_M | 1.003 | 0.41 |
| 60_R | 94_W | 1.002 | 0.41 |
| 301_S | 305_W | 1.002 | 0.41 |
| 267_A | 271_N | 1.000 | 0.41 |
| 133_P | 232_S | 1.000 | 0.41 |
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 | |
| 4p17A | 2 | 0.6515 | 100 | 0.4 | Contact Map |
| 3qyeA | 2 | 0.7078 | 100 | 0.412 | Contact Map |
| 3hzjA | 3 | 0.7051 | 100 | 0.412 | Contact Map |
| 2qq8A | 1 | 0.681 | 100 | 0.417 | Contact Map |
| 1fkmA | 1 | 0.6756 | 100 | 0.43 | Contact Map |
| 2qfzA | 2 | 0.6676 | 100 | 0.444 | Contact Map |
| 4hl4A | 1 | 0.6729 | 100 | 0.453 | Contact Map |
| 3qwlA | 1 | 0.6488 | 100 | 0.509 | Contact Map |
| 2jtqA | 1 | 0.1072 | 95.8 | 0.934 | Contact Map |
| 3fojA | 1 | 0.1421 | 95.8 | 0.934 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)