| SLF_2 |
| ID: | 1509075394 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 389 (373) | ||
| Sequences: | 3261 (2690.3) | ||
| Seq/Len: | 8.743 | ||
| Nf(neff/√len): | 139.3 |
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: 8.743).
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 |
| 229_H | 304_Y | 5.447 | 1.00 |
| 32_I | 36_W | 4.506 | 1.00 |
| 204_R | 248_E | 3.738 | 1.00 |
| 170_K | 248_E | 3.700 | 1.00 |
| 140_L | 171_V | 3.658 | 1.00 |
| 16_L | 20_T | 3.611 | 1.00 |
| 25_S | 29_F | 3.258 | 1.00 |
| 33_S | 36_W | 3.002 | 1.00 |
| 18_L | 32_I | 2.418 | 1.00 |
| 26_L | 40_I | 2.395 | 1.00 |
| 30_K | 41_Q | 2.310 | 1.00 |
| 138_R | 201_D | 2.296 | 1.00 |
| 118_L | 129_V | 2.262 | 1.00 |
| 120_A | 127_T | 2.225 | 1.00 |
| 14_V | 18_L | 2.224 | 1.00 |
| 131_N | 134_T | 2.204 | 1.00 |
| 22_P | 25_S | 2.198 | 1.00 |
| 243_F | 250_F | 2.164 | 1.00 |
| 173_R | 194_D | 2.136 | 1.00 |
| 45_F | 49_H | 2.132 | 1.00 |
| 116_D | 162_L | 2.111 | 1.00 |
| 19_L | 52_R | 2.086 | 1.00 |
| 168_Y | 199_S | 2.085 | 1.00 |
| 244_D | 247_T | 2.056 | 1.00 |
| 143_S | 194_D | 1.995 | 1.00 |
| 159_G | 230_W | 1.990 | 1.00 |
| 161_G | 245_M | 1.952 | 1.00 |
| 332_I | 353_K | 1.944 | 1.00 |
| 272_I | 275_E | 1.901 | 1.00 |
| 243_F | 248_E | 1.895 | 1.00 |
| 297_H | 312_M | 1.884 | 1.00 |
| 168_Y | 197_D | 1.866 | 1.00 |
| 23_V | 49_H | 1.796 | 1.00 |
| 112_I | 120_A | 1.777 | 1.00 |
| 223_L | 226_E | 1.738 | 1.00 |
| 12_D | 15_F | 1.721 | 1.00 |
| 18_L | 26_L | 1.692 | 1.00 |
| 172_V | 195_V | 1.677 | 1.00 |
| 230_W | 250_F | 1.674 | 1.00 |
| 332_I | 346_D | 1.669 | 1.00 |
| 30_K | 40_I | 1.664 | 1.00 |
| 346_D | 349_S | 1.624 | 1.00 |
| 18_L | 36_W | 1.623 | 1.00 |
| 228_V | 245_M | 1.592 | 1.00 |
| 162_L | 167_N | 1.553 | 1.00 |
| 120_A | 171_V | 1.547 | 1.00 |
| 276_S | 302_M | 1.521 | 1.00 |
| 163_D | 168_Y | 1.501 | 1.00 |
| 28_R | 31_C | 1.482 | 1.00 |
| 196_C | 203_W | 1.473 | 1.00 |
| 19_L | 48_R | 1.470 | 1.00 |
| 114_P | 119_I | 1.443 | 0.99 |
| 242_C | 251_H | 1.439 | 0.99 |
| 50_I | 374_T | 1.428 | 0.99 |
| 46_I | 49_H | 1.422 | 0.99 |
| 301_M | 304_Y | 1.413 | 0.99 |
| 366_V | 370_K | 1.412 | 0.99 |
| 16_L | 48_R | 1.408 | 0.99 |
| 23_V | 29_F | 1.406 | 0.99 |
| 229_H | 306_V | 1.402 | 0.99 |
| 27_M | 30_K | 1.400 | 0.99 |
| 196_C | 201_D | 1.366 | 0.99 |
| 206_L | 243_F | 1.366 | 0.99 |
| 304_Y | 309_S | 1.363 | 0.99 |
| 370_K | 374_T | 1.361 | 0.99 |
| 115_C | 162_L | 1.359 | 0.99 |
| 271_V | 278_T | 1.356 | 0.99 |
| 29_F | 33_S | 1.355 | 0.99 |
| 345_Y | 350_G | 1.340 | 0.99 |
| 170_K | 195_V | 1.326 | 0.99 |
| 274_C | 277_F | 1.323 | 0.99 |
| 40_I | 45_F | 1.304 | 0.99 |
| 242_C | 253_M | 1.298 | 0.99 |
| 18_L | 40_I | 1.294 | 0.99 |
| 172_V | 243_F | 1.288 | 0.98 |
| 172_V | 230_W | 1.288 | 0.98 |
| 223_L | 228_V | 1.282 | 0.98 |
| 369_Y | 376_I | 1.274 | 0.98 |
| 346_D | 352_A | 1.261 | 0.98 |
| 116_D | 169_Y | 1.254 | 0.98 |
| 372_C | 376_I | 1.248 | 0.98 |
| 370_K | 377_P | 1.243 | 0.98 |
| 129_V | 198_L | 1.243 | 0.98 |
| 16_L | 44_T | 1.240 | 0.98 |
| 227_M | 244_D | 1.234 | 0.98 |
| 9_L | 14_V | 1.233 | 0.98 |
| 15_F | 19_L | 1.233 | 0.98 |
| 24_K | 29_F | 1.218 | 0.98 |
| 133_A | 371_E | 1.217 | 0.98 |
| 45_F | 170_K | 1.213 | 0.97 |
| 9_L | 12_D | 1.211 | 0.97 |
| 46_I | 374_T | 1.211 | 0.97 |
| 162_L | 168_Y | 1.203 | 0.97 |
| 143_S | 173_R | 1.202 | 0.97 |
| 368_V | 371_E | 1.200 | 0.97 |
| 138_R | 196_C | 1.198 | 0.97 |
| 370_K | 373_L | 1.196 | 0.97 |
| 50_I | 53_K | 1.189 | 0.97 |
| 372_C | 375_S | 1.189 | 0.97 |
| 368_V | 375_S | 1.189 | 0.97 |
| 113_G | 193_I | 1.175 | 0.97 |
| 369_Y | 372_C | 1.166 | 0.97 |
| 25_S | 28_R | 1.163 | 0.97 |
| 196_C | 199_S | 1.161 | 0.97 |
| 168_Y | 198_L | 1.159 | 0.96 |
| 163_D | 170_K | 1.155 | 0.96 |
| 312_M | 315_T | 1.155 | 0.96 |
| 366_V | 369_Y | 1.149 | 0.96 |
| 9_L | 13_L | 1.146 | 0.96 |
| 161_G | 170_K | 1.144 | 0.96 |
| 225_K | 229_H | 1.142 | 0.96 |
| 374_T | 377_P | 1.138 | 0.96 |
| 97_V | 100_M | 1.136 | 0.96 |
| 170_K | 173_R | 1.135 | 0.96 |
| 120_A | 160_F | 1.134 | 0.96 |
| 113_G | 228_V | 1.131 | 0.96 |
| 302_M | 311_I | 1.126 | 0.96 |
| 363_S | 367_K | 1.124 | 0.96 |
| 126_I | 301_M | 1.121 | 0.95 |
| 22_P | 29_F | 1.111 | 0.95 |
| 367_K | 377_P | 1.109 | 0.95 |
| 302_M | 309_S | 1.108 | 0.95 |
| 299_W | 310_W | 1.103 | 0.95 |
| 230_W | 243_F | 1.103 | 0.95 |
| 130_L | 137_F | 1.100 | 0.95 |
| 18_L | 21_F | 1.095 | 0.95 |
| 202_S | 242_C | 1.095 | 0.95 |
| 24_K | 27_M | 1.092 | 0.95 |
| 127_T | 158_V | 1.091 | 0.95 |
| 17_I | 20_T | 1.091 | 0.95 |
| 172_V | 193_I | 1.090 | 0.95 |
| 192_K | 205_E | 1.088 | 0.94 |
| 22_P | 32_I | 1.083 | 0.94 |
| 11_E | 35_A | 1.070 | 0.94 |
| 270_L | 274_C | 1.065 | 0.94 |
| 305_G | 309_S | 1.064 | 0.94 |
| 121_L | 128_I | 1.060 | 0.93 |
| 251_H | 347_L | 1.060 | 0.93 |
| 240_I | 307_S | 1.058 | 0.93 |
| 119_I | 132_P | 1.057 | 0.93 |
| 163_D | 245_M | 1.056 | 0.93 |
| 159_G | 172_V | 1.055 | 0.93 |
| 273_L | 278_T | 1.054 | 0.93 |
| 15_F | 39_L | 1.053 | 0.93 |
| 42_S | 47_N | 1.052 | 0.93 |
| 299_W | 312_M | 1.051 | 0.93 |
| 59_E | 62_L | 1.051 | 0.93 |
| 224_Y | 272_I | 1.047 | 0.93 |
| 40_I | 136_N | 1.046 | 0.93 |
| 157_G | 174_I | 1.044 | 0.93 |
| 295_K | 315_T | 1.042 | 0.93 |
| 373_L | 376_I | 1.040 | 0.93 |
| 30_K | 345_Y | 1.036 | 0.92 |
| 342_L | 354_E | 1.031 | 0.92 |
| 159_G | 228_V | 1.030 | 0.92 |
| 367_K | 376_I | 1.022 | 0.92 |
| 232_A | 239_V | 1.021 | 0.92 |
| 130_L | 143_S | 1.021 | 0.92 |
| 362_D | 365_S | 1.020 | 0.92 |
| 225_K | 275_E | 1.016 | 0.91 |
| 29_F | 32_I | 1.016 | 0.91 |
| 256_P | 310_W | 1.014 | 0.91 |
| 303_E | 309_S | 1.011 | 0.91 |
| 39_L | 48_R | 1.008 | 0.91 |
| 15_F | 141_P | 1.006 | 0.91 |
| 206_L | 230_W | 1.004 | 0.91 |
| 21_F | 36_W | 1.003 | 0.91 |
| 115_C | 160_F | 1.001 | 0.91 |
| 13_L | 16_L | 1.000 | 0.90 |
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 | |
| 4yy8A | 2 | 0.8226 | 98.9 | 0.844 | Contact Map |
| 3wsoA | 1 | 0.545 | 98.5 | 0.864 | Contact Map |
| 1fs1A | 2 | 0.1054 | 98.4 | 0.868 | Contact Map |
| 2wozA | 1 | 0.7326 | 98.2 | 0.873 | Contact Map |
| 2uvkA | 2 | 0.6787 | 98.2 | 0.874 | Contact Map |
| 2ovrB | 1 | 0.8458 | 98.1 | 0.875 | Contact Map |
| 2e31A | 1 | 0.4884 | 98.1 | 0.877 | Contact Map |
| 3ii7A | 1 | 0.6298 | 98.1 | 0.877 | Contact Map |
| 1p22A | 1 | 0.8406 | 98.1 | 0.878 | Contact Map |
| 3v7dB | 2 | 0.8483 | 98 | 0.878 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)