| 107610861084_10901074108610771081_1084107210841099 |
| ID: | 1418190144 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 217 (216) | ||
| Sequences: | 1222 (738.5) | ||
| Seq/Len: | 5.657 | ||
| Nf(neff/√len): | 50.2 |
Jackhmmer Results: (2014_04_16)
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: 5.657).
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 |
| 24_T | 93_E | 3.008 | 1.00 |
| 177_F | 202_H | 2.626 | 1.00 |
| 149_L | 152_A | 2.601 | 1.00 |
| 148_R | 151_A | 2.453 | 1.00 |
| 19_W | 56_K | 2.441 | 1.00 |
| 64_K | 91_E | 2.420 | 1.00 |
| 180_V | 194_M | 2.315 | 1.00 |
| 48_F | 94_W | 2.229 | 1.00 |
| 133_E | 204_R | 2.112 | 1.00 |
| 128_E | 135_Q | 1.993 | 1.00 |
| 48_F | 53_L | 1.973 | 1.00 |
| 45_L | 48_F | 1.849 | 1.00 |
| 147_V | 152_A | 1.804 | 1.00 |
| 23_H | 48_F | 1.651 | 1.00 |
| 13_V | 63_S | 1.627 | 0.99 |
| 9_Y | 118_L | 1.622 | 0.99 |
| 34_S | 37_E | 1.594 | 0.99 |
| 41_L | 104_M | 1.575 | 0.99 |
| 63_S | 70_L | 1.544 | 0.99 |
| 128_E | 169_A | 1.532 | 0.99 |
| 128_E | 132_A | 1.507 | 0.99 |
| 81_V | 87_P | 1.493 | 0.99 |
| 38_V | 112_T | 1.475 | 0.99 |
| 125_L | 128_E | 1.474 | 0.99 |
| 45_L | 101_Y | 1.465 | 0.99 |
| 19_W | 94_W | 1.461 | 0.99 |
| 157_Q | 160_G | 1.440 | 0.98 |
| 56_K | 59_D | 1.420 | 0.98 |
| 48_F | 101_Y | 1.419 | 0.98 |
| 132_A | 201_L | 1.404 | 0.98 |
| 127_M | 130_G | 1.389 | 0.98 |
| 188_H | 194_M | 1.381 | 0.98 |
| 23_H | 52_E | 1.381 | 0.98 |
| 94_W | 121_I | 1.378 | 0.98 |
| 115_L | 118_L | 1.341 | 0.97 |
| 132_A | 135_Q | 1.331 | 0.97 |
| 27_F | 97_L | 1.323 | 0.97 |
| 81_V | 97_L | 1.314 | 0.97 |
| 16_L | 56_K | 1.285 | 0.96 |
| 59_D | 73_A | 1.277 | 0.96 |
| 135_Q | 139_A | 1.261 | 0.96 |
| 148_R | 152_A | 1.256 | 0.95 |
| 122_V | 133_E | 1.249 | 0.95 |
| 42_R | 108_A | 1.247 | 0.95 |
| 53_L | 101_Y | 1.246 | 0.95 |
| 125_L | 135_Q | 1.237 | 0.95 |
| 123_T | 176_L | 1.219 | 0.94 |
| 59_D | 63_S | 1.212 | 0.94 |
| 19_W | 52_E | 1.210 | 0.94 |
| 199_Y | 203_K | 1.192 | 0.93 |
| 115_L | 122_V | 1.189 | 0.93 |
| 130_G | 140_D | 1.186 | 0.93 |
| 130_G | 153_G | 1.185 | 0.93 |
| 159_A | 212_Y | 1.176 | 0.93 |
| 210_T | 214_L | 1.175 | 0.93 |
| 46_S | 50_A | 1.158 | 0.92 |
| 176_L | 183_L | 1.148 | 0.92 |
| 17_L | 93_E | 1.144 | 0.91 |
| 111_W | 115_L | 1.138 | 0.91 |
| 165_D | 169_A | 1.135 | 0.91 |
| 119_Q | 125_L | 1.134 | 0.91 |
| 105_L | 109_Y | 1.134 | 0.91 |
| 60_K | 64_K | 1.130 | 0.91 |
| 129_A | 133_E | 1.117 | 0.90 |
| 16_L | 60_K | 1.114 | 0.90 |
| 9_Y | 104_M | 1.109 | 0.90 |
| 158_R | 168_K | 1.109 | 0.90 |
| 43_E | 46_S | 1.101 | 0.89 |
| 33_S | 37_E | 1.100 | 0.89 |
| 19_W | 165_D | 1.099 | 0.89 |
| 13_V | 90_V | 1.094 | 0.89 |
| 16_L | 20_M | 1.093 | 0.89 |
| 94_W | 205_L | 1.092 | 0.89 |
| 60_K | 70_L | 1.091 | 0.89 |
| 32_P | 41_L | 1.081 | 0.88 |
| 91_E | 95_K | 1.078 | 0.88 |
| 4_L | 190_Q | 1.078 | 0.88 |
| 9_Y | 17_L | 1.073 | 0.88 |
| 9_Y | 70_L | 1.070 | 0.87 |
| 41_L | 204_R | 1.068 | 0.87 |
| 155_V | 158_R | 1.063 | 0.87 |
| 183_L | 191_G | 1.060 | 0.87 |
| 147_V | 151_A | 1.059 | 0.87 |
| 176_L | 180_V | 1.056 | 0.86 |
| 42_R | 174_R | 1.047 | 0.86 |
| 159_A | 215_R | 1.047 | 0.86 |
| 48_F | 55_A | 1.046 | 0.86 |
| 109_Y | 116_N | 1.046 | 0.86 |
| 194_M | 212_Y | 1.044 | 0.86 |
| 170_D | 174_R | 1.042 | 0.85 |
| 84_G | 89_D | 1.036 | 0.85 |
| 67_Y | 87_P | 1.035 | 0.85 |
| 80_K | 90_V | 1.031 | 0.85 |
| 101_Y | 105_L | 1.028 | 0.84 |
| 85_Y | 89_D | 1.027 | 0.84 |
| 140_D | 143_L | 1.020 | 0.84 |
| 52_E | 56_K | 1.019 | 0.84 |
| 37_E | 41_L | 1.015 | 0.83 |
| 167_D | 209_R | 1.011 | 0.83 |
| 66_I | 71_E | 1.005 | 0.83 |
| 128_E | 143_L | 1.004 | 0.82 |
| 98_L | 172_M | 1.004 | 0.82 |
| 176_L | 179_D | 1.000 | 0.82 |
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 | |
| 2odvA | 1 | 0.9816 | 99.9 | 0.262 | Contact Map |
| 1u5pA | 1 | 0.9539 | 99.8 | 0.31 | Contact Map |
| 1s35A | 1 | 0.9401 | 99.8 | 0.311 | Contact Map |
| 3fb2A | 2 | 0.9171 | 99.8 | 0.312 | Contact Map |
| 1u4qA | 2 | 0.9539 | 99.8 | 0.324 | Contact Map |
| 3eduA | 1 | 0.8664 | 99.8 | 0.326 | Contact Map |
| 3edvA | 2 | 0.9631 | 99.8 | 0.328 | Contact Map |
| 1cunA | 3 | 0.9447 | 99.8 | 0.331 | Contact Map |
| 1quuA | 1 | 0.9677 | 99.8 | 0.337 | Contact Map |
| 3kbtA | 2 | 0.9447 | 99.8 | 0.342 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)