| hisB |
| ID: | 1516928227 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 355 (355) | ||
| Sequences: | 458 (210) | ||
| Seq/Len: | 1.290 | ||
| Nf(neff/√len): | 11.1 |
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: 1.290).
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 |
| 135_I | 145_G | 4.838 | 1.00 |
| 77_M | 90_V | 4.501 | 1.00 |
| 15_I | 24_V | 4.394 | 1.00 |
| 14_L | 80_F | 3.821 | 1.00 |
| 174_N | 179_Q | 3.596 | 1.00 |
| 27_F | 75_L | 2.874 | 1.00 |
| 27_F | 72_P | 2.853 | 1.00 |
| 243_L | 305_L | 2.842 | 1.00 |
| 66_Q | 70_D | 2.832 | 1.00 |
| 266_L | 270_A | 2.797 | 1.00 |
| 95_H | 101_C | 2.625 | 1.00 |
| 15_I | 76_M | 2.504 | 1.00 |
| 170_H | 183_Q | 2.340 | 0.99 |
| 172_V | 179_Q | 2.171 | 0.99 |
| 89_E | 113_R | 2.087 | 0.98 |
| 192_S | 209_A | 2.062 | 0.98 |
| 237_L | 308_T | 2.026 | 0.98 |
| 127_V | 137_L | 1.896 | 0.96 |
| 244_K | 310_G | 1.876 | 0.96 |
| 35_G | 154_N | 1.839 | 0.95 |
| 322_D | 325_R | 1.838 | 0.95 |
| 111_V | 141_M | 1.834 | 0.95 |
| 20_S | 24_V | 1.824 | 0.95 |
| 198_V | 292_D | 1.781 | 0.94 |
| 73_H | 90_V | 1.727 | 0.92 |
| 15_I | 20_S | 1.721 | 0.92 |
| 19_P | 24_V | 1.720 | 0.92 |
| 192_S | 206_D | 1.712 | 0.92 |
| 241_E | 245_I | 1.696 | 0.91 |
| 37_I | 79_I | 1.692 | 0.91 |
| 38_P | 41_L | 1.677 | 0.91 |
| 232_V | 293_L | 1.676 | 0.91 |
| 298_I | 326_V | 1.658 | 0.90 |
| 3_Q | 49_K | 1.631 | 0.89 |
| 72_P | 75_L | 1.620 | 0.89 |
| 30_L | 76_M | 1.600 | 0.88 |
| 305_L | 311_V | 1.597 | 0.88 |
| 52_M | 90_V | 1.589 | 0.87 |
| 95_H | 103_C | 1.587 | 0.87 |
| 39_E | 156_P | 1.559 | 0.86 |
| 49_K | 88_D | 1.537 | 0.85 |
| 237_L | 277_P | 1.510 | 0.84 |
| 265_C | 328_S | 1.502 | 0.83 |
| 279_L | 299_E | 1.502 | 0.83 |
| 303_R | 307_Y | 1.493 | 0.83 |
| 155_W | 158_I | 1.466 | 0.81 |
| 199_G | 225_Y | 1.462 | 0.81 |
| 80_F | 85_V | 1.449 | 0.80 |
| 271_L | 336_T | 1.432 | 0.79 |
| 79_I | 82_S | 1.431 | 0.79 |
| 210_T | 351_S | 1.429 | 0.79 |
| 170_H | 181_D | 1.404 | 0.77 |
| 78_Q | 81_T | 1.382 | 0.75 |
| 132_A | 147_R | 1.373 | 0.75 |
| 193_K | 217_E | 1.372 | 0.75 |
| 264_E | 274_S | 1.364 | 0.74 |
| 91_L | 111_V | 1.363 | 0.74 |
| 101_C | 107_K | 1.355 | 0.73 |
| 136_Q | 225_Y | 1.353 | 0.73 |
| 45_K | 159_G | 1.352 | 0.73 |
| 267_A | 328_S | 1.348 | 0.73 |
| 208_I | 236_G | 1.336 | 0.72 |
| 148_Y | 165_R | 1.330 | 0.71 |
| 183_Q | 217_E | 1.329 | 0.71 |
| 94_P | 103_C | 1.326 | 0.71 |
| 93_C | 103_C | 1.323 | 0.71 |
| 15_I | 22_F | 1.306 | 0.69 |
| 319_G | 325_R | 1.306 | 0.69 |
| 289_R | 292_D | 1.304 | 0.69 |
| 91_L | 109_K | 1.295 | 0.68 |
| 220_V | 235_T | 1.278 | 0.67 |
| 93_C | 101_C | 1.277 | 0.67 |
| 24_V | 220_V | 1.271 | 0.66 |
| 36_V | 80_F | 1.266 | 0.66 |
| 94_P | 282_K | 1.263 | 0.66 |
| 315_L | 329_L | 1.262 | 0.65 |
| 91_L | 113_R | 1.261 | 0.65 |
| 42_K | 45_K | 1.256 | 0.65 |
| 208_I | 271_L | 1.255 | 0.65 |
| 171_V | 277_P | 1.252 | 0.65 |
| 4_K | 124_N | 1.248 | 0.64 |
| 108_V | 111_V | 1.247 | 0.64 |
| 315_L | 326_V | 1.231 | 0.63 |
| 45_K | 163_T | 1.229 | 0.62 |
| 159_G | 163_T | 1.228 | 0.62 |
| 35_G | 156_P | 1.228 | 0.62 |
| 185_W | 215_R | 1.228 | 0.62 |
| 75_L | 97_P | 1.225 | 0.62 |
| 242_A | 264_E | 1.218 | 0.61 |
| 27_F | 71_G | 1.202 | 0.60 |
| 208_I | 265_C | 1.200 | 0.60 |
| 176_K | 335_R | 1.195 | 0.59 |
| 287_Y | 296_E | 1.194 | 0.59 |
| 31_A | 82_S | 1.194 | 0.59 |
| 256_F | 334_G | 1.179 | 0.58 |
| 267_A | 311_V | 1.175 | 0.57 |
| 181_D | 217_E | 1.175 | 0.57 |
| 155_W | 162_L | 1.171 | 0.57 |
| 158_I | 162_L | 1.170 | 0.57 |
| 42_K | 159_G | 1.169 | 0.57 |
| 292_D | 342_R | 1.168 | 0.57 |
| 91_L | 110_L | 1.167 | 0.57 |
| 208_I | 333_F | 1.160 | 0.56 |
| 288_Q | 294_S | 1.159 | 0.56 |
| 14_L | 30_L | 1.157 | 0.56 |
| 52_M | 80_F | 1.152 | 0.55 |
| 62_Q | 67_A | 1.151 | 0.55 |
| 24_V | 64_F | 1.150 | 0.55 |
| 228_D | 294_S | 1.147 | 0.55 |
| 15_I | 37_I | 1.145 | 0.54 |
| 16_S | 31_A | 1.145 | 0.54 |
| 190_G | 206_D | 1.138 | 0.54 |
| 37_I | 80_F | 1.131 | 0.53 |
| 305_L | 315_L | 1.125 | 0.52 |
| 19_P | 22_F | 1.118 | 0.52 |
| 195_N | 219_N | 1.117 | 0.52 |
| 170_H | 217_E | 1.116 | 0.51 |
| 179_Q | 218_I | 1.113 | 0.51 |
| 225_Y | 237_L | 1.111 | 0.51 |
| 162_L | 275_G | 1.102 | 0.50 |
| 80_F | 265_C | 1.101 | 0.50 |
| 184_V | 243_L | 1.098 | 0.50 |
| 68_D | 71_G | 1.091 | 0.49 |
| 214_F | 338_R | 1.090 | 0.49 |
| 37_I | 76_M | 1.089 | 0.49 |
| 314_H | 318_K | 1.082 | 0.48 |
| 18_P | 76_M | 1.081 | 0.48 |
| 41_L | 44_Q | 1.072 | 0.47 |
| 107_K | 136_Q | 1.066 | 0.47 |
| 280_E | 314_H | 1.063 | 0.46 |
| 171_V | 220_V | 1.063 | 0.46 |
| 15_I | 79_I | 1.058 | 0.46 |
| 188_R | 215_R | 1.052 | 0.45 |
| 22_F | 27_F | 1.051 | 0.45 |
| 293_L | 298_I | 1.051 | 0.45 |
| 80_F | 194_I | 1.048 | 0.45 |
| 35_G | 107_K | 1.048 | 0.45 |
| 62_Q | 243_L | 1.047 | 0.45 |
| 32_F | 79_I | 1.045 | 0.44 |
| 21_D | 29_K | 1.041 | 0.44 |
| 241_E | 297_M | 1.040 | 0.44 |
| 15_I | 30_L | 1.040 | 0.44 |
| 180_I | 242_A | 1.035 | 0.43 |
| 63_S | 96_L | 1.033 | 0.43 |
| 348_L | 354_V | 1.033 | 0.43 |
| 64_F | 68_D | 1.029 | 0.43 |
| 317_T | 332_A | 1.029 | 0.43 |
| 62_Q | 145_G | 1.029 | 0.43 |
| 16_S | 19_P | 1.017 | 0.42 |
| 290_V | 320_K | 1.016 | 0.42 |
| 52_M | 64_F | 1.007 | 0.41 |
| 146_L | 153_L | 1.006 | 0.41 |
| 226_I | 274_S | 1.005 | 0.41 |
| 115_L | 118_Q | 1.004 | 0.40 |
| 190_G | 215_R | 1.003 | 0.40 |
| 336_T | 348_L | 1.003 | 0.40 |
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 | |
| 4mu3A | 1 | 0.5127 | 100 | 0.52 | Contact Map |
| 1rhyA | 2 | 0.4901 | 100 | 0.522 | Contact Map |
| 2ae8A | 6 | 0.4845 | 100 | 0.524 | Contact Map |
| 4gquA | 1 | 0.5127 | 100 | 0.526 | Contact Map |
| 2fprA | 2 | 0.4535 | 100 | 0.844 | Contact Map |
| 3l8hA | 4 | 0.5014 | 99.9 | 0.858 | Contact Map |
| 2gmwA | 2 | 0.4873 | 99.9 | 0.873 | Contact Map |
| 4pnhA | 12 | 0 | 99.9 | 0.875 | Contact Map |
| 2o2xA | 1 | 0.5099 | 99.9 | 0.876 | Contact Map |
| 3zvlA | 1 | 0.8535 | 99.8 | 0.887 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)