| T0783 1-275 |
| ID: | 1400522863 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 275 (232) | ||
| Sequences: | 10590 (6896) | ||
| Seq/Len: | 45.647 | ||
| Nf(neff/√len): | 452.7 |
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: 45.647).
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 |
| 34_R | 42_Q | 4.591 | 1.00 |
| 35_P | 38_S | 2.500 | 1.00 |
| 9_A | 50_I | 2.394 | 1.00 |
| 38_S | 42_Q | 2.320 | 1.00 |
| 154_S | 158_C | 2.280 | 1.00 |
| 52_D | 75_K | 2.200 | 1.00 |
| 44_L | 115_H | 2.165 | 1.00 |
| 158_C | 211_K | 2.135 | 1.00 |
| 8_A | 52_D | 2.109 | 1.00 |
| 52_D | 78_S | 2.061 | 1.00 |
| 143_I | 214_L | 2.049 | 1.00 |
| 9_A | 44_L | 1.942 | 1.00 |
| 94_L | 186_Y | 1.918 | 1.00 |
| 137_H | 213_K | 1.827 | 1.00 |
| 130_V | 176_A | 1.818 | 1.00 |
| 57_V | 62_M | 1.790 | 1.00 |
| 47_V | 128_L | 1.787 | 1.00 |
| 202_Q | 206_K | 1.783 | 1.00 |
| 80_V | 92_N | 1.766 | 1.00 |
| 98_A | 109_P | 1.725 | 1.00 |
| 56_A | 93_G | 1.712 | 1.00 |
| 64_V | 67_S | 1.684 | 1.00 |
| 20_M | 29_C | 1.657 | 1.00 |
| 36_L | 224_V | 1.648 | 1.00 |
| 132_T | 136_E | 1.625 | 1.00 |
| 85_T | 88_R | 1.621 | 1.00 |
| 148_S | 151_V | 1.614 | 1.00 |
| 128_L | 132_T | 1.605 | 1.00 |
| 63_E | 67_S | 1.604 | 1.00 |
| 82_A | 88_R | 1.596 | 1.00 |
| 38_S | 68_I | 1.592 | 1.00 |
| 94_L | 187_Q | 1.585 | 1.00 |
| 24_T | 30_P | 1.578 | 1.00 |
| 179_F | 183_Y | 1.575 | 1.00 |
| 145_P | 169_R | 1.561 | 1.00 |
| 129_K | 132_T | 1.559 | 1.00 |
| 30_P | 234_E | 1.559 | 1.00 |
| 230_L | 234_E | 1.545 | 1.00 |
| 181_V | 210_T | 1.529 | 1.00 |
| 145_P | 216_E | 1.526 | 1.00 |
| 34_R | 39_Y | 1.508 | 1.00 |
| 133_A | 213_K | 1.479 | 1.00 |
| 37_I | 65_M | 1.462 | 1.00 |
| 13_A | 55_V | 1.447 | 1.00 |
| 111_V | 135_K | 1.443 | 1.00 |
| 49_W | 128_L | 1.442 | 1.00 |
| 90_I | 114_I | 1.441 | 1.00 |
| 30_P | 35_P | 1.440 | 1.00 |
| 199_E | 202_Q | 1.437 | 1.00 |
| 52_D | 76_R | 1.435 | 1.00 |
| 39_Y | 43_A | 1.435 | 1.00 |
| 224_V | 233_A | 1.429 | 1.00 |
| 125_G | 129_K | 1.426 | 1.00 |
| 154_S | 160_D | 1.414 | 1.00 |
| 111_V | 178_L | 1.411 | 1.00 |
| 84_V | 88_R | 1.405 | 0.99 |
| 158_C | 213_K | 1.381 | 0.99 |
| 38_S | 72_Y | 1.380 | 0.99 |
| 62_M | 66_K | 1.380 | 0.99 |
| 113_I | 176_A | 1.378 | 0.99 |
| 45_E | 53_I | 1.377 | 0.99 |
| 24_T | 64_V | 1.364 | 0.99 |
| 34_R | 38_S | 1.362 | 0.99 |
| 15_G | 25_P | 1.358 | 0.99 |
| 11_L | 44_L | 1.341 | 0.99 |
| 126_V | 129_K | 1.337 | 0.99 |
| 29_C | 230_L | 1.334 | 0.99 |
| 41_L | 53_I | 1.305 | 0.99 |
| 152_S | 161_Y | 1.301 | 0.99 |
| 123_E | 126_V | 1.292 | 0.99 |
| 35_P | 39_Y | 1.291 | 0.99 |
| 91_F | 94_L | 1.288 | 0.99 |
| 133_A | 215_V | 1.286 | 0.99 |
| 88_R | 92_N | 1.284 | 0.99 |
| 57_V | 79_L | 1.269 | 0.99 |
| 113_I | 131_V | 1.260 | 0.99 |
| 203_L | 206_K | 1.253 | 0.99 |
| 184_E | 188_Q | 1.251 | 0.99 |
| 54_V | 80_V | 1.251 | 0.99 |
| 48_C | 128_L | 1.245 | 0.98 |
| 153_P | 214_L | 1.231 | 0.98 |
| 62_M | 81_E | 1.229 | 0.98 |
| 139_A | 213_K | 1.198 | 0.98 |
| 161_Y | 165_R | 1.197 | 0.98 |
| 10_V | 93_G | 1.191 | 0.98 |
| 178_L | 181_V | 1.189 | 0.98 |
| 180_D | 184_E | 1.182 | 0.98 |
| 10_V | 112_V | 1.179 | 0.98 |
| 70_Q | 79_L | 1.174 | 0.98 |
| 231_Y | 234_E | 1.169 | 0.97 |
| 46_R | 124_E | 1.167 | 0.97 |
| 66_K | 70_Q | 1.165 | 0.97 |
| 37_I | 55_V | 1.158 | 0.97 |
| 121_F | 233_A | 1.153 | 0.97 |
| 126_V | 220_D | 1.152 | 0.97 |
| 35_P | 68_I | 1.150 | 0.97 |
| 20_M | 227_K | 1.141 | 0.97 |
| 43_A | 46_R | 1.139 | 0.97 |
| 177_F | 201_L | 1.139 | 0.97 |
| 54_V | 96_A | 1.137 | 0.97 |
| 28_F | 64_V | 1.137 | 0.97 |
| 56_A | 89_S | 1.136 | 0.97 |
| 47_V | 50_I | 1.136 | 0.97 |
| 138_G | 178_L | 1.134 | 0.97 |
| 112_V | 179_F | 1.132 | 0.97 |
| 30_P | 33_E | 1.130 | 0.97 |
| 10_V | 90_I | 1.122 | 0.97 |
| 6_A | 110_E | 1.122 | 0.97 |
| 12_P | 56_A | 1.113 | 0.96 |
| 133_A | 137_H | 1.111 | 0.96 |
| 180_D | 183_Y | 1.109 | 0.96 |
| 45_E | 76_R | 1.105 | 0.96 |
| 126_V | 142_A | 1.092 | 0.96 |
| 42_Q | 46_R | 1.089 | 0.96 |
| 69_I | 74_H | 1.080 | 0.95 |
| 134_A | 142_A | 1.078 | 0.95 |
| 110_E | 179_F | 1.074 | 0.95 |
| 111_V | 176_A | 1.073 | 0.95 |
| 234_E | 238_K | 1.071 | 0.95 |
| 184_E | 203_L | 1.069 | 0.95 |
| 184_E | 200_C | 1.064 | 0.95 |
| 161_Y | 202_Q | 1.064 | 0.95 |
| 25_P | 64_V | 1.062 | 0.95 |
| 229_D | 232_A | 1.058 | 0.95 |
| 231_Y | 235_S | 1.047 | 0.94 |
| 57_V | 66_K | 1.045 | 0.94 |
| 63_E | 66_K | 1.043 | 0.94 |
| 200_C | 203_L | 1.024 | 0.93 |
| 8_A | 109_P | 1.022 | 0.93 |
| 111_V | 134_A | 1.022 | 0.93 |
| 59_G | 64_V | 1.021 | 0.93 |
| 53_I | 74_H | 1.017 | 0.93 |
| 20_M | 230_L | 1.007 | 0.93 |
| 94_L | 183_Y | 1.004 | 0.93 |
| 39_Y | 237_I | 1.000 | 0.92 |
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 | |
| 4kt7A | 2 | 0.8073 | 100 | 0.427 | Contact Map |
| 2vshA | 2 | 0.7964 | 100 | 0.448 | Contact Map |
| 1i52A | 1 | 0.8073 | 100 | 0.448 | Contact Map |
| 2yc3A | 1 | 0.7964 | 100 | 0.453 | Contact Map |
| 1iimA | 2 | 0.9055 | 100 | 0.457 | Contact Map |
| 3q80A | 2 | 0.7964 | 100 | 0.459 | Contact Map |
| 4jisA | 2 | 0.7891 | 100 | 0.462 | Contact Map |
| 2v0hA | 1 | 0.9273 | 100 | 0.465 | Contact Map |
| 4fceA | 1 | 0.9091 | 100 | 0.47 | Contact Map |
| 2xwlA | 2 | 0.8036 | 100 | 0.471 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)