| T0813 |
| ID: | 1402423047 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 307 (284) | ||
| Sequences: | 2353 (1738.7) | ||
| Seq/Len: | 8.285 | ||
| Nf(neff/√len): | 103.2 |
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: 8.285).
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 |
| 9_A | 66_A | 3.463 | 1.00 |
| 7_T | 32_T | 3.449 | 1.00 |
| 163_R | 175_E | 3.068 | 1.00 |
| 281_R | 285_R | 2.818 | 1.00 |
| 252_A | 262_Q | 2.774 | 1.00 |
| 32_T | 54_R | 2.753 | 1.00 |
| 96_T | 122_G | 2.588 | 1.00 |
| 45_R | 134_D | 2.556 | 1.00 |
| 163_R | 167_E | 2.532 | 1.00 |
| 73_V | 81_V | 2.430 | 1.00 |
| 80_A | 84_E | 2.396 | 1.00 |
| 58_S | 61_E | 2.380 | 1.00 |
| 255_S | 259_A | 2.371 | 1.00 |
| 8_I | 24_I | 2.356 | 1.00 |
| 40_E | 44_K | 2.325 | 1.00 |
| 22_R | 136_G | 2.281 | 1.00 |
| 269_D | 272_K | 2.239 | 1.00 |
| 255_S | 262_Q | 2.106 | 1.00 |
| 16_I | 98_V | 2.058 | 1.00 |
| 7_T | 34_V | 2.032 | 1.00 |
| 125_I | 185_L | 2.026 | 1.00 |
| 43_L | 55_Y | 1.937 | 1.00 |
| 10_L | 21_A | 1.853 | 1.00 |
| 128_T | 137_F | 1.803 | 1.00 |
| 13_I | 35_V | 1.801 | 1.00 |
| 230_A | 285_R | 1.793 | 1.00 |
| 25_R | 53_D | 1.775 | 1.00 |
| 244_K | 268_G | 1.767 | 1.00 |
| 252_A | 266_R | 1.763 | 1.00 |
| 82_A | 109_M | 1.726 | 1.00 |
| 23_D | 169_L | 1.702 | 1.00 |
| 177_D | 180_H | 1.693 | 1.00 |
| 24_I | 165_F | 1.690 | 1.00 |
| 9_A | 62_A | 1.670 | 1.00 |
| 122_G | 148_L | 1.668 | 1.00 |
| 147_I | 176_M | 1.654 | 1.00 |
| 20_I | 169_L | 1.611 | 1.00 |
| 37_T | 42_T | 1.608 | 1.00 |
| 26_E | 138_A | 1.608 | 1.00 |
| 160_A | 163_R | 1.602 | 1.00 |
| 67_D | 90_K | 1.589 | 1.00 |
| 20_I | 70_V | 1.589 | 1.00 |
| 120_V | 162_L | 1.584 | 1.00 |
| 79_G | 83_A | 1.581 | 1.00 |
| 264_A | 272_K | 1.552 | 1.00 |
| 263_R | 267_W | 1.542 | 1.00 |
| 71_V | 81_V | 1.540 | 1.00 |
| 90_K | 93_A | 1.534 | 1.00 |
| 21_A | 51_L | 1.525 | 1.00 |
| 146_C | 166_W | 1.512 | 1.00 |
| 13_I | 37_T | 1.491 | 1.00 |
| 71_V | 78_S | 1.476 | 0.99 |
| 60_A | 88_H | 1.472 | 0.99 |
| 160_A | 164_L | 1.466 | 0.99 |
| 230_A | 281_R | 1.463 | 0.99 |
| 35_V | 52_G | 1.449 | 0.99 |
| 262_Q | 266_R | 1.431 | 0.99 |
| 118_H | 155_D | 1.425 | 0.99 |
| 164_L | 167_E | 1.415 | 0.99 |
| 7_T | 65_G | 1.415 | 0.99 |
| 44_K | 48_E | 1.402 | 0.99 |
| 94_I | 158_A | 1.379 | 0.99 |
| 71_V | 82_A | 1.374 | 0.99 |
| 43_L | 52_G | 1.370 | 0.99 |
| 224_D | 228_L | 1.367 | 0.99 |
| 196_A | 229_A | 1.354 | 0.99 |
| 9_A | 36_T | 1.349 | 0.99 |
| 106_I | 178_P | 1.347 | 0.99 |
| 75_V | 101_T | 1.338 | 0.99 |
| 155_D | 158_A | 1.335 | 0.99 |
| 75_V | 99_G | 1.323 | 0.99 |
| 237_R | 274_F | 1.301 | 0.98 |
| 231_S | 277_F | 1.296 | 0.98 |
| 86_A | 113_L | 1.293 | 0.98 |
| 275_D | 279_R | 1.288 | 0.98 |
| 240_C | 247_I | 1.272 | 0.98 |
| 89_L | 95_V | 1.270 | 0.98 |
| 193_H | 236_W | 1.254 | 0.98 |
| 183_K | 249_E | 1.250 | 0.98 |
| 166_W | 173_V | 1.248 | 0.98 |
| 11_I | 81_V | 1.247 | 0.98 |
| 271_D | 275_D | 1.246 | 0.98 |
| 148_L | 163_R | 1.245 | 0.98 |
| 191_L | 247_I | 1.232 | 0.98 |
| 78_S | 99_G | 1.228 | 0.97 |
| 94_I | 162_L | 1.211 | 0.97 |
| 237_R | 270_G | 1.208 | 0.97 |
| 68_L | 94_I | 1.195 | 0.97 |
| 11_I | 85_I | 1.194 | 0.97 |
| 96_T | 162_L | 1.184 | 0.97 |
| 248_L | 266_R | 1.177 | 0.96 |
| 38_R | 73_V | 1.174 | 0.96 |
| 10_L | 17_G | 1.167 | 0.96 |
| 49_L | 133_P | 1.165 | 0.96 |
| 16_I | 141_F | 1.165 | 0.96 |
| 180_H | 213_E | 1.163 | 0.96 |
| 122_G | 166_W | 1.159 | 0.96 |
| 11_I | 36_T | 1.159 | 0.96 |
| 79_G | 108_Q | 1.159 | 0.96 |
| 122_G | 146_C | 1.158 | 0.96 |
| 23_D | 139_G | 1.157 | 0.96 |
| 156_E | 160_A | 1.154 | 0.96 |
| 69_V | 89_L | 1.151 | 0.96 |
| 16_I | 126_A | 1.147 | 0.96 |
| 45_R | 48_E | 1.145 | 0.96 |
| 159_V | 175_E | 1.142 | 0.96 |
| 34_V | 65_G | 1.137 | 0.95 |
| 25_R | 33_I | 1.133 | 0.95 |
| 15_L | 239_V | 1.128 | 0.95 |
| 8_I | 68_L | 1.127 | 0.95 |
| 264_A | 269_D | 1.120 | 0.95 |
| 241_L | 270_G | 1.112 | 0.95 |
| 69_V | 93_A | 1.097 | 0.94 |
| 150_P | 159_V | 1.091 | 0.94 |
| 9_A | 63_V | 1.091 | 0.94 |
| 21_A | 33_I | 1.090 | 0.94 |
| 103_G | 179_K | 1.085 | 0.94 |
| 52_G | 55_Y | 1.084 | 0.94 |
| 103_G | 107_A | 1.073 | 0.93 |
| 140_L | 190_H | 1.073 | 0.93 |
| 221_G | 224_D | 1.064 | 0.93 |
| 274_F | 278_T | 1.063 | 0.93 |
| 24_I | 29_L | 1.061 | 0.93 |
| 94_I | 161_R | 1.060 | 0.93 |
| 165_F | 169_L | 1.054 | 0.92 |
| 97_D | 106_I | 1.050 | 0.92 |
| 60_A | 84_E | 1.049 | 0.92 |
| 85_I | 88_H | 1.047 | 0.92 |
| 164_L | 168_T | 1.040 | 0.92 |
| 43_L | 57_L | 1.038 | 0.92 |
| 125_I | 188_V | 1.030 | 0.91 |
| 234_T | 274_F | 1.027 | 0.91 |
| 109_M | 119_F | 1.023 | 0.91 |
| 40_E | 57_L | 1.021 | 0.91 |
| 92_G | 118_H | 1.013 | 0.90 |
| 224_D | 227_R | 1.012 | 0.90 |
| 68_L | 162_L | 1.012 | 0.90 |
| 240_C | 277_F | 1.010 | 0.90 |
| 142_R | 170_G | 1.009 | 0.90 |
| 195_I | 198_N | 1.007 | 0.90 |
| 20_I | 98_V | 1.006 | 0.90 |
| 186_A | 243_N | 1.005 | 0.90 |
| 231_S | 239_V | 1.003 | 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 | |
| 3ktdA | 4 | 0.9544 | 100 | 0.371 | Contact Map |
| 2g5cA | 4 | 0.9121 | 100 | 0.381 | Contact Map |
| 3b1fA | 1 | 0.9153 | 100 | 0.388 | Contact Map |
| 3ggoA | 4 | 0.9251 | 100 | 0.394 | Contact Map |
| 2f1kA | 4 | 0.8958 | 100 | 0.417 | Contact Map |
| 2pv7A | 2 | 0.8795 | 100 | 0.439 | Contact Map |
| 2izzA | 5 | 0.873 | 100 | 0.635 | Contact Map |
| 4e12A | 1 | 0.8241 | 100 | 0.638 | Contact Map |
| 4kqwA | 2 | 0.9153 | 100 | 0.639 | Contact Map |
| 1zejA | 1 | 0.8664 | 99.9 | 0.645 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)