| HuNoV_62-218B |
| ID: | 1505154707 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 157 (156) | ||
| Sequences: | 1300 (604.5) | ||
| Seq/Len: | 8.333 | ||
| Nf(neff/√len): | 48.4 |
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: 8.333).
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 |
| 44_V | 97_L | 3.191 | 1.00 |
| 62_A | 115_I | 3.026 | 1.00 |
| 43_E | 144_R | 3.002 | 1.00 |
| 41_G | 148_D | 2.952 | 1.00 |
| 58_V | 119_A | 2.353 | 1.00 |
| 57_K | 86_D | 2.291 | 1.00 |
| 41_G | 146_S | 2.213 | 1.00 |
| 39_A | 150_D | 2.154 | 1.00 |
| 5_V | 121_L | 2.053 | 1.00 |
| 46_V | 141_V | 2.050 | 1.00 |
| 51_N | 54_T | 2.012 | 1.00 |
| 43_E | 94_L | 1.942 | 1.00 |
| 16_W | 119_A | 1.933 | 1.00 |
| 32_A | 151_F | 1.909 | 1.00 |
| 84_I | 122_Y | 1.886 | 1.00 |
| 45_Q | 92_P | 1.877 | 1.00 |
| 59_I | 78_T | 1.818 | 1.00 |
| 45_Q | 94_L | 1.699 | 1.00 |
| 57_K | 84_I | 1.671 | 1.00 |
| 3_F | 139_C | 1.642 | 1.00 |
| 62_A | 97_L | 1.627 | 1.00 |
| 54_T | 125_L | 1.566 | 1.00 |
| 60_F | 117_L | 1.435 | 0.99 |
| 9_N | 13_E | 1.405 | 0.99 |
| 43_E | 96_P | 1.383 | 0.99 |
| 61_A | 77_V | 1.369 | 0.99 |
| 28_L | 42_F | 1.352 | 0.99 |
| 50_G | 87_V | 1.327 | 0.99 |
| 95_I | 117_L | 1.321 | 0.99 |
| 42_F | 143_T | 1.321 | 0.99 |
| 77_V | 120_M | 1.320 | 0.99 |
| 62_A | 95_I | 1.297 | 0.98 |
| 27_Y | 30_H | 1.274 | 0.98 |
| 51_N | 125_L | 1.250 | 0.98 |
| 105_Y | 152_I | 1.234 | 0.98 |
| 26_P | 30_H | 1.233 | 0.98 |
| 61_A | 118_I | 1.218 | 0.97 |
| 56_G | 87_V | 1.216 | 0.97 |
| 40_G | 149_F | 1.211 | 0.97 |
| 10_A | 13_E | 1.190 | 0.97 |
| 146_S | 149_F | 1.183 | 0.97 |
| 27_Y | 31_L | 1.163 | 0.96 |
| 35_Y | 154_L | 1.162 | 0.96 |
| 44_V | 117_L | 1.162 | 0.96 |
| 63_V | 118_I | 1.157 | 0.96 |
| 58_V | 125_L | 1.140 | 0.96 |
| 63_V | 77_V | 1.125 | 0.95 |
| 39_A | 154_L | 1.117 | 0.95 |
| 70_E | 134_V | 1.116 | 0.95 |
| 60_F | 141_V | 1.110 | 0.95 |
| 30_H | 34_M | 1.110 | 0.95 |
| 47_I | 142_L | 1.108 | 0.95 |
| 52_A | 87_V | 1.106 | 0.95 |
| 60_F | 119_A | 1.099 | 0.94 |
| 127_A | 134_V | 1.081 | 0.94 |
| 85_V | 95_I | 1.080 | 0.94 |
| 59_I | 109_Q | 1.067 | 0.93 |
| 59_I | 120_M | 1.067 | 0.93 |
| 22_P | 38_Y | 1.066 | 0.93 |
| 62_A | 65_P | 1.064 | 0.93 |
| 56_G | 125_L | 1.042 | 0.92 |
| 6_S | 9_N | 1.039 | 0.92 |
| 40_G | 146_S | 1.038 | 0.92 |
| 43_E | 147_P | 1.021 | 0.91 |
| 4_T | 138_S | 1.020 | 0.91 |
| 53_F | 56_G | 1.013 | 0.90 |
| 14_I | 17_S | 1.002 | 0.90 |
| 110_S | 130_A | 1.002 | 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 | |
| 4ejrA | 2 | 0.9809 | 100 | 0.079 | Contact Map |
| 3j1pA | 3 | 0.9809 | 100 | 0.089 | Contact Map |
| 1aym3 | 1 | 0.9809 | 100 | 0.113 | Contact Map |
| 2mev3 | 1 | 0.9809 | 100 | 0.114 | Contact Map |
| 4gb33 | 1 | 0.9809 | 100 | 0.115 | Contact Map |
| 3vbhC | 1 | 0.9809 | 100 | 0.116 | Contact Map |
| 3napC | 1 | 0.9936 | 100 | 0.117 | Contact Map |
| 1bev3 | 1 | 0.9809 | 100 | 0.118 | Contact Map |
| 1ncqC | 1 | 0.9809 | 100 | 0.122 | Contact Map |
| 1b35C | 1 | 0.9873 | 100 | 0.123 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)