| Glk1 |
| ID: | 1433273334 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 493 (466) | ||
| Sequences: | 1330 (769.5) | ||
| Seq/Len: | 2.854 | ||
| Nf(neff/√len): | 35.6 |
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: 2.854).
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 |
| 329_L | 407_I | 3.601 | 1.00 |
| 126_G | 198_A | 3.389 | 1.00 |
| 169_G | 209_L | 3.057 | 1.00 |
| 298_K | 335_D | 2.981 | 1.00 |
| 31_K | 34_E | 2.631 | 1.00 |
| 411_S | 452_F | 2.466 | 1.00 |
| 299_Y | 335_D | 2.389 | 1.00 |
| 409_R | 455_M | 2.355 | 1.00 |
| 255_K | 277_E | 2.328 | 1.00 |
| 126_G | 195_Q | 2.323 | 1.00 |
| 22_C | 402_R | 2.294 | 1.00 |
| 255_K | 258_N | 2.262 | 1.00 |
| 88_F | 128_I | 2.240 | 1.00 |
| 320_V | 415_A | 2.225 | 1.00 |
| 29_E | 461_A | 2.181 | 1.00 |
| 121_S | 183_A | 2.159 | 1.00 |
| 130_K | 199_V | 2.149 | 1.00 |
| 132_T | 196_L | 2.081 | 1.00 |
| 248_T | 284_W | 2.068 | 1.00 |
| 120_T | 182_D | 2.059 | 1.00 |
| 440_G | 488_L | 2.057 | 1.00 |
| 106_L | 138_R | 1.967 | 0.99 |
| 64_S | 214_V | 1.966 | 0.99 |
| 190_K | 194_E | 1.957 | 0.99 |
| 133_M | 137_K | 1.955 | 0.99 |
| 132_T | 204_V | 1.939 | 0.99 |
| 194_E | 198_A | 1.925 | 0.99 |
| 96_N | 100_T | 1.879 | 0.99 |
| 409_R | 458_H | 1.872 | 0.99 |
| 160_P | 175_T | 1.867 | 0.99 |
| 302_L | 331_N | 1.845 | 0.99 |
| 447_E | 479_K | 1.832 | 0.99 |
| 302_L | 307_F | 1.793 | 0.99 |
| 165_S | 168_S | 1.784 | 0.99 |
| 419_I | 439_I | 1.773 | 0.99 |
| 120_T | 123_E | 1.769 | 0.99 |
| 25_F | 332_V | 1.764 | 0.99 |
| 84_G | 246_T | 1.764 | 0.99 |
| 332_V | 403_L | 1.734 | 0.98 |
| 327_E | 330_R | 1.727 | 0.98 |
| 218_L | 489_C | 1.628 | 0.97 |
| 152_K | 207_V | 1.628 | 0.97 |
| 369_I | 380_T | 1.628 | 0.97 |
| 355_L | 388_L | 1.581 | 0.97 |
| 279_C | 427_G | 1.565 | 0.96 |
| 35_L | 417_V | 1.558 | 0.96 |
| 195_Q | 198_A | 1.557 | 0.96 |
| 301_L | 306_K | 1.555 | 0.96 |
| 54_G | 57_R | 1.549 | 0.96 |
| 329_L | 404_V | 1.538 | 0.96 |
| 19_D | 23_K | 1.537 | 0.96 |
| 333_L | 400_I | 1.533 | 0.96 |
| 377_L | 397_R | 1.524 | 0.96 |
| 85_G | 322_G | 1.515 | 0.96 |
| 325_L | 445_V | 1.515 | 0.96 |
| 413_Y | 459_G | 1.511 | 0.95 |
| 370_E | 449_Y | 1.511 | 0.95 |
| 156_T | 482_S | 1.497 | 0.95 |
| 243_I | 442_D | 1.492 | 0.95 |
| 18_V | 22_C | 1.486 | 0.95 |
| 84_G | 322_G | 1.480 | 0.95 |
| 416_S | 459_G | 1.473 | 0.95 |
| 182_D | 186_K | 1.467 | 0.94 |
| 193_Q | 197_D | 1.454 | 0.94 |
| 361_L | 404_V | 1.451 | 0.94 |
| 82_D | 156_T | 1.441 | 0.94 |
| 37_A | 424_I | 1.429 | 0.93 |
| 307_F | 331_N | 1.427 | 0.93 |
| 85_G | 158_S | 1.427 | 0.93 |
| 420_A | 460_L | 1.419 | 0.93 |
| 40_I | 424_I | 1.409 | 0.93 |
| 482_S | 486_A | 1.393 | 0.92 |
| 38_Y | 293_H | 1.378 | 0.92 |
| 480_D | 483_G | 1.378 | 0.92 |
| 441_C | 475_L | 1.352 | 0.91 |
| 91_C | 103_L | 1.349 | 0.90 |
| 82_D | 482_S | 1.340 | 0.90 |
| 27_V | 35_L | 1.333 | 0.90 |
| 392_T | 397_R | 1.332 | 0.90 |
| 83_L | 110_I | 1.331 | 0.90 |
| 82_D | 158_S | 1.321 | 0.89 |
| 297_T | 332_V | 1.317 | 0.89 |
| 246_T | 444_S | 1.315 | 0.89 |
| 296_T | 319_R | 1.308 | 0.89 |
| 246_T | 322_G | 1.304 | 0.88 |
| 244_F | 452_F | 1.303 | 0.88 |
| 70_P | 74_E | 1.301 | 0.88 |
| 158_S | 246_T | 1.300 | 0.88 |
| 328_V | 331_N | 1.299 | 0.88 |
| 43_M | 422_V | 1.298 | 0.88 |
| 155_F | 171_L | 1.288 | 0.88 |
| 453_R | 457_R | 1.286 | 0.87 |
| 101_F | 484_V | 1.283 | 0.87 |
| 156_T | 442_D | 1.276 | 0.87 |
| 239_V | 423_I | 1.273 | 0.87 |
| 84_G | 444_S | 1.273 | 0.87 |
| 384_L | 390_L | 1.273 | 0.87 |
| 372_D | 377_L | 1.270 | 0.87 |
| 404_V | 407_I | 1.269 | 0.87 |
| 40_I | 44_E | 1.247 | 0.85 |
| 377_L | 394_A | 1.246 | 0.85 |
| 124_L | 157_F | 1.245 | 0.85 |
| 121_S | 180_I | 1.245 | 0.85 |
| 122_D | 198_A | 1.239 | 0.85 |
| 87_N | 157_F | 1.237 | 0.85 |
| 189_V | 209_L | 1.237 | 0.85 |
| 73_T | 98_D | 1.237 | 0.85 |
| 77_T | 92_S | 1.236 | 0.85 |
| 161_V | 169_G | 1.227 | 0.84 |
| 161_V | 209_L | 1.227 | 0.84 |
| 332_V | 407_I | 1.226 | 0.84 |
| 110_I | 178_F | 1.217 | 0.83 |
| 403_L | 407_I | 1.209 | 0.83 |
| 29_E | 33_R | 1.202 | 0.82 |
| 243_I | 246_T | 1.201 | 0.82 |
| 322_G | 444_S | 1.199 | 0.82 |
| 21_I | 332_V | 1.194 | 0.82 |
| 439_I | 460_L | 1.193 | 0.82 |
| 43_M | 282_I | 1.192 | 0.81 |
| 252_Y | 318_K | 1.191 | 0.81 |
| 123_E | 126_G | 1.190 | 0.81 |
| 126_G | 199_V | 1.187 | 0.81 |
| 28_T | 31_K | 1.187 | 0.81 |
| 162_A | 170_T | 1.185 | 0.81 |
| 115_L | 323_M | 1.182 | 0.81 |
| 133_M | 199_V | 1.181 | 0.81 |
| 153_L | 192_Y | 1.181 | 0.81 |
| 84_G | 212_D | 1.178 | 0.80 |
| 254_E | 318_K | 1.176 | 0.80 |
| 224_S | 438_E | 1.176 | 0.80 |
| 96_N | 102_K | 1.175 | 0.80 |
| 82_D | 86_T | 1.174 | 0.80 |
| 215_G | 483_G | 1.173 | 0.80 |
| 84_G | 158_S | 1.169 | 0.80 |
| 382_L | 386_Q | 1.165 | 0.79 |
| 86_T | 157_F | 1.165 | 0.79 |
| 466_G | 470_E | 1.164 | 0.79 |
| 159_Y | 178_F | 1.163 | 0.79 |
| 160_P | 178_F | 1.163 | 0.79 |
| 153_L | 206_V | 1.162 | 0.79 |
| 117_D | 123_E | 1.159 | 0.79 |
| 284_W | 316_F | 1.158 | 0.79 |
| 258_N | 439_I | 1.156 | 0.79 |
| 326_G | 363_S | 1.155 | 0.79 |
| 366_L | 404_V | 1.149 | 0.78 |
| 112_E | 115_L | 1.149 | 0.78 |
| 332_V | 406_A | 1.140 | 0.77 |
| 290_E | 293_H | 1.138 | 0.77 |
| 215_G | 480_D | 1.134 | 0.77 |
| 422_V | 459_G | 1.126 | 0.76 |
| 85_G | 246_T | 1.125 | 0.76 |
| 157_F | 171_L | 1.125 | 0.76 |
| 201_L | 328_V | 1.124 | 0.76 |
| 175_T | 314_H | 1.122 | 0.76 |
| 215_G | 481_G | 1.121 | 0.76 |
| 457_R | 470_E | 1.118 | 0.75 |
| 316_F | 414_L | 1.116 | 0.75 |
| 401_Q | 405_R | 1.112 | 0.75 |
| 415_A | 456_M | 1.108 | 0.74 |
| 78_F | 280_I | 1.107 | 0.74 |
| 152_K | 421_A | 1.106 | 0.74 |
| 442_D | 482_S | 1.105 | 0.74 |
| 286_S | 314_H | 1.102 | 0.74 |
| 28_T | 182_D | 1.100 | 0.74 |
| 121_S | 125_F | 1.099 | 0.74 |
| 381_E | 397_R | 1.098 | 0.73 |
| 303_I | 331_N | 1.095 | 0.73 |
| 224_S | 440_G | 1.095 | 0.73 |
| 108_S | 131_R | 1.094 | 0.73 |
| 36_T | 40_I | 1.094 | 0.73 |
| 164_T | 168_S | 1.091 | 0.73 |
| 111_P | 312_G | 1.090 | 0.73 |
| 133_M | 201_L | 1.090 | 0.73 |
| 253_M | 279_C | 1.087 | 0.72 |
| 171_L | 174_W | 1.087 | 0.72 |
| 177_G | 323_M | 1.078 | 0.72 |
| 255_K | 426_T | 1.074 | 0.71 |
| 164_T | 170_T | 1.074 | 0.71 |
| 442_D | 483_G | 1.073 | 0.71 |
| 460_L | 475_L | 1.072 | 0.71 |
| 302_L | 306_K | 1.066 | 0.70 |
| 290_E | 294_L | 1.062 | 0.70 |
| 77_T | 94_R | 1.059 | 0.70 |
| 74_E | 222_Y | 1.057 | 0.69 |
| 120_T | 181_K | 1.056 | 0.69 |
| 84_G | 157_F | 1.053 | 0.69 |
| 157_F | 174_W | 1.049 | 0.69 |
| 379_E | 383_S | 1.049 | 0.69 |
| 256_L | 259_I | 1.048 | 0.68 |
| 38_Y | 41_E | 1.047 | 0.68 |
| 95_L | 490_A | 1.045 | 0.68 |
| 314_H | 380_T | 1.038 | 0.67 |
| 159_Y | 196_L | 1.038 | 0.67 |
| 279_C | 489_C | 1.038 | 0.67 |
| 242_C | 439_I | 1.038 | 0.67 |
| 36_T | 316_F | 1.036 | 0.67 |
| 139_Y | 440_G | 1.036 | 0.67 |
| 423_I | 437_V | 1.034 | 0.67 |
| 416_S | 456_M | 1.029 | 0.66 |
| 244_F | 415_A | 1.028 | 0.66 |
| 198_A | 382_L | 1.025 | 0.66 |
| 83_L | 124_L | 1.024 | 0.66 |
| 156_T | 486_A | 1.023 | 0.66 |
| 82_D | 246_T | 1.023 | 0.66 |
| 93_V | 460_L | 1.021 | 0.65 |
| 212_D | 246_T | 1.020 | 0.65 |
| 214_V | 278_M | 1.020 | 0.65 |
| 72_G | 76_G | 1.014 | 0.65 |
| 110_I | 358_P | 1.013 | 0.65 |
| 171_L | 175_T | 1.009 | 0.64 |
| 111_P | 114_L | 1.008 | 0.64 |
| 60_P | 286_S | 1.008 | 0.64 |
| 160_P | 314_H | 1.008 | 0.64 |
| 127_F | 134_A | 1.007 | 0.64 |
| 384_L | 400_I | 1.007 | 0.64 |
| 157_F | 188_V | 1.005 | 0.64 |
| 361_L | 365_I | 1.001 | 0.63 |
| 327_E | 331_N | 1.001 | 0.63 |
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 | |
| 2yhxA | 1 | 0.7485 | 100 | 0.113 | Contact Map |
| 1czaN | 1 | 0.8945 | 100 | 0.405 | Contact Map |
| 3f9mA | 1 | 0.9026 | 100 | 0.529 | Contact Map |
| 3o8mA | 1 | 0.9189 | 100 | 0.537 | Contact Map |
| 1bdgA | 1 | 0.8925 | 100 | 0.551 | Contact Map |
| 3hm8A | 4 | 0.8803 | 100 | 0.556 | Contact Map |
| 3r8eA | 1 | 0.6045 | 99.9 | 0.854 | Contact Map |
| 2hoeA | 1 | 0.6937 | 99.8 | 0.856 | Contact Map |
| 4ijaA | 2 | 0.7059 | 99.8 | 0.867 | Contact Map |
| 1z6rA | 4 | 0.7241 | 99.8 | 0.869 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)