| B4F292_PROMH 900-1272 |
| ID: | 1407723790 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 373 (373) | ||
| Sequences: | 1186 (947.3) | ||
| Seq/Len: | 3.180 | ||
| Nf(neff/√len): | 49.0 |
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: 3.180).
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 |
| 211_Q | 240_D | 3.715 | 1.00 |
| 100_I | 103_A | 3.245 | 1.00 |
| 85_F | 94_L | 3.102 | 1.00 |
| 246_I | 257_A | 2.758 | 1.00 |
| 97_R | 145_A | 2.651 | 1.00 |
| 103_A | 152_V | 2.566 | 1.00 |
| 64_G | 81_P | 2.437 | 1.00 |
| 162_R | 186_R | 2.413 | 1.00 |
| 95_D | 143_N | 2.302 | 1.00 |
| 99_D | 147_N | 2.279 | 1.00 |
| 323_K | 329_Q | 2.273 | 1.00 |
| 211_Q | 238_L | 2.262 | 1.00 |
| 321_S | 329_Q | 2.230 | 1.00 |
| 303_S | 322_G | 2.220 | 1.00 |
| 63_N | 82_D | 2.036 | 1.00 |
| 147_N | 166_A | 2.011 | 1.00 |
| 171_Q | 176_L | 1.914 | 1.00 |
| 148_I | 165_G | 1.874 | 0.99 |
| 328_L | 347_Y | 1.856 | 0.99 |
| 199_R | 217_E | 1.855 | 0.99 |
| 95_D | 141_Q | 1.807 | 0.99 |
| 353_L | 367_L | 1.729 | 0.99 |
| 143_N | 168_K | 1.724 | 0.99 |
| 203_I | 216_I | 1.671 | 0.98 |
| 217_E | 234_K | 1.670 | 0.98 |
| 178_L | 209_V | 1.649 | 0.98 |
| 98_I | 146_I | 1.643 | 0.98 |
| 198_V | 216_I | 1.611 | 0.98 |
| 194_Q | 220_R | 1.598 | 0.98 |
| 44_L | 62_A | 1.598 | 0.98 |
| 169_V | 178_L | 1.559 | 0.97 |
| 59_V | 84_V | 1.559 | 0.97 |
| 350_M | 353_L | 1.551 | 0.97 |
| 163_L | 182_V | 1.542 | 0.97 |
| 200_K | 215_N | 1.536 | 0.97 |
| 4_L | 18_G | 1.535 | 0.97 |
| 302_I | 322_G | 1.521 | 0.96 |
| 323_K | 326_D | 1.516 | 0.96 |
| 324_I | 328_L | 1.495 | 0.96 |
| 158_G | 196_L | 1.484 | 0.96 |
| 190_K | 195_D | 1.477 | 0.96 |
| 199_R | 219_I | 1.469 | 0.95 |
| 42_L | 67_L | 1.458 | 0.95 |
| 236_T | 245_E | 1.444 | 0.95 |
| 102_W | 151_D | 1.441 | 0.95 |
| 282_I | 285_G | 1.429 | 0.95 |
| 94_L | 140_I | 1.419 | 0.94 |
| 155_D | 160_K | 1.399 | 0.94 |
| 205_F | 212_P | 1.389 | 0.93 |
| 324_I | 345_L | 1.386 | 0.93 |
| 196_L | 220_R | 1.368 | 0.93 |
| 165_G | 191_A | 1.366 | 0.93 |
| 83_L | 96_G | 1.358 | 0.92 |
| 68_R | 261_L | 1.358 | 0.92 |
| 46_G | 60_V | 1.355 | 0.92 |
| 113_S | 203_I | 1.354 | 0.92 |
| 104_R | 151_D | 1.331 | 0.91 |
| 81_P | 98_I | 1.331 | 0.91 |
| 165_G | 182_V | 1.327 | 0.91 |
| 196_L | 232_G | 1.312 | 0.91 |
| 232_G | 247_F | 1.310 | 0.90 |
| 172_S | 176_L | 1.297 | 0.90 |
| 80_N | 101_P | 1.296 | 0.90 |
| 231_A | 261_L | 1.294 | 0.90 |
| 328_L | 345_L | 1.288 | 0.89 |
| 61_A | 84_V | 1.284 | 0.89 |
| 280_M | 292_L | 1.260 | 0.88 |
| 158_G | 193_G | 1.256 | 0.88 |
| 94_L | 144_L | 1.254 | 0.88 |
| 253_T | 273_D | 1.246 | 0.87 |
| 16_T | 34_R | 1.243 | 0.87 |
| 23_R | 32_S | 1.230 | 0.86 |
| 256_E | 303_S | 1.223 | 0.86 |
| 234_K | 245_E | 1.217 | 0.86 |
| 194_Q | 207_G | 1.217 | 0.86 |
| 15_I | 29_S | 1.216 | 0.85 |
| 17_K | 36_E | 1.209 | 0.85 |
| 250_P | 264_G | 1.208 | 0.85 |
| 175_G | 324_I | 1.206 | 0.85 |
| 271_D | 278_T | 1.195 | 0.84 |
| 214_L | 235_V | 1.194 | 0.84 |
| 161_A | 181_Q | 1.194 | 0.84 |
| 79_V | 100_I | 1.190 | 0.84 |
| 275_A | 278_T | 1.182 | 0.83 |
| 149_G | 162_R | 1.181 | 0.83 |
| 211_Q | 239_A | 1.175 | 0.83 |
| 161_A | 184_I | 1.174 | 0.83 |
| 165_G | 196_L | 1.168 | 0.82 |
| 364_A | 371_F | 1.168 | 0.82 |
| 248_S | 257_A | 1.165 | 0.82 |
| 136_T | 144_L | 1.160 | 0.82 |
| 233_V | 260_Y | 1.159 | 0.82 |
| 169_V | 305_L | 1.156 | 0.81 |
| 363_Q | 368_L | 1.147 | 0.81 |
| 6_V | 14_D | 1.147 | 0.81 |
| 149_G | 152_V | 1.137 | 0.80 |
| 255_Q | 262_L | 1.136 | 0.80 |
| 145_A | 168_K | 1.136 | 0.80 |
| 47_N | 59_V | 1.131 | 0.79 |
| 15_I | 18_G | 1.130 | 0.79 |
| 181_Q | 204_L | 1.122 | 0.79 |
| 144_L | 193_G | 1.115 | 0.78 |
| 280_M | 283_G | 1.114 | 0.78 |
| 93_K | 141_Q | 1.112 | 0.78 |
| 252_K | 260_Y | 1.112 | 0.78 |
| 28_T | 47_N | 1.109 | 0.77 |
| 66_K | 101_P | 1.105 | 0.77 |
| 256_E | 260_Y | 1.102 | 0.77 |
| 23_R | 30_D | 1.101 | 0.77 |
| 257_A | 334_M | 1.099 | 0.77 |
| 296_I | 324_I | 1.094 | 0.76 |
| 4_L | 8_G | 1.094 | 0.76 |
| 193_G | 196_L | 1.094 | 0.76 |
| 332_Y | 366_D | 1.093 | 0.76 |
| 332_Y | 341_A | 1.092 | 0.76 |
| 100_I | 152_V | 1.088 | 0.76 |
| 77_I | 103_A | 1.087 | 0.75 |
| 3_Q | 6_V | 1.085 | 0.75 |
| 94_L | 233_V | 1.085 | 0.75 |
| 165_G | 207_G | 1.080 | 0.75 |
| 159_L | 203_I | 1.077 | 0.74 |
| 100_I | 296_I | 1.071 | 0.74 |
| 81_P | 260_Y | 1.071 | 0.74 |
| 97_R | 147_N | 1.069 | 0.74 |
| 233_V | 246_I | 1.066 | 0.73 |
| 80_N | 197_Q | 1.064 | 0.73 |
| 220_R | 231_A | 1.063 | 0.73 |
| 182_V | 198_V | 1.062 | 0.73 |
| 29_S | 213_Y | 1.062 | 0.73 |
| 207_G | 242_P | 1.061 | 0.73 |
| 167_L | 245_E | 1.055 | 0.72 |
| 209_V | 220_R | 1.051 | 0.72 |
| 343_L | 346_R | 1.051 | 0.72 |
| 176_L | 345_L | 1.050 | 0.72 |
| 346_R | 354_Y | 1.050 | 0.72 |
| 242_P | 262_L | 1.049 | 0.72 |
| 349_L | 359_S | 1.049 | 0.72 |
| 52_K | 79_V | 1.048 | 0.72 |
| 178_L | 346_R | 1.044 | 0.71 |
| 201_G | 218_A | 1.042 | 0.71 |
| 154_L | 272_S | 1.041 | 0.71 |
| 130_P | 235_V | 1.040 | 0.71 |
| 96_G | 212_P | 1.040 | 0.71 |
| 19_N | 57_R | 1.038 | 0.71 |
| 184_I | 257_A | 1.037 | 0.70 |
| 66_K | 79_V | 1.036 | 0.70 |
| 246_I | 258_L | 1.033 | 0.70 |
| 369_Y | 373_F | 1.033 | 0.70 |
| 194_Q | 265_E | 1.030 | 0.70 |
| 361_M | 368_L | 1.028 | 0.69 |
| 247_F | 257_A | 1.028 | 0.69 |
| 164_T | 185_P | 1.027 | 0.69 |
| 360_G | 368_L | 1.026 | 0.69 |
| 158_G | 220_R | 1.026 | 0.69 |
| 215_N | 236_T | 1.025 | 0.69 |
| 22_I | 29_S | 1.025 | 0.69 |
| 105_I | 165_G | 1.025 | 0.69 |
| 196_L | 247_F | 1.022 | 0.69 |
| 203_I | 242_P | 1.022 | 0.69 |
| 205_F | 264_G | 1.021 | 0.69 |
| 100_I | 163_L | 1.021 | 0.69 |
| 220_R | 260_Y | 1.019 | 0.69 |
| 85_F | 95_D | 1.015 | 0.68 |
| 216_I | 235_V | 1.014 | 0.68 |
| 90_H | 95_D | 1.013 | 0.68 |
| 191_A | 196_L | 1.013 | 0.68 |
| 108_Q | 186_R | 1.013 | 0.68 |
| 28_T | 41_Y | 1.013 | 0.68 |
| 69_V | 219_I | 1.010 | 0.68 |
| 184_I | 216_I | 1.008 | 0.67 |
| 37_T | 67_L | 1.007 | 0.67 |
| 83_L | 117_A | 1.005 | 0.67 |
| 206_S | 239_A | 1.005 | 0.67 |
| 81_P | 337_F | 1.002 | 0.67 |
| 361_M | 364_A | 1.000 | 0.66 |
| 192_Y | 220_R | 1.000 | 0.66 |
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 | |
| 3hpeA | 2 | 0.4021 | 14.1 | 0.963 | Contact Map |
| 1h54A | 2 | 0.1689 | 7.8 | 0.967 | Contact Map |
| 3lycA | 16 | 0.311 | 6.9 | 0.968 | Contact Map |
| 3petA | 2 | 0.3137 | 5.9 | 0.969 | Contact Map |
| 1v1hA | 6 | 0.2466 | 5.4 | 0.969 | Contact Map |
| 3cnuA | 1 | 0.252 | 5.3 | 0.97 | Contact Map |
| 4fuvA | 1 | 0.1743 | 4.6 | 0.97 | Contact Map |
| 3butA | 1 | 0.2761 | 4.3 | 0.971 | Contact Map |
| 4opwA | 2 | 0.3083 | 4.1 | 0.971 | Contact Map |
| 1wubA | 1 | 0.4236 | 4.1 | 0.971 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)