| LectinC |
| ID: | 1433338284 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 125 (120) | ||
| Sequences: | 132 (117.4) | ||
| Seq/Len: | 1.100 | ||
| Nf(neff/√len): | 10.7 |
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: 1.100).
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 |
| 10_G | 92_G | 2.209 | 0.98 |
| 110_T | 113_H | 2.006 | 0.96 |
| 16_G | 57_E | 1.960 | 0.96 |
| 72_H | 113_H | 1.901 | 0.95 |
| 39_Q | 80_Q | 1.896 | 0.95 |
| 43_N | 84_W | 1.892 | 0.94 |
| 16_G | 98_D | 1.865 | 0.94 |
| 12_V | 94_L | 1.833 | 0.93 |
| 65_W | 106_W | 1.803 | 0.92 |
| 31_Y | 72_H | 1.771 | 0.91 |
| 69_S | 72_H | 1.611 | 0.85 |
| 43_N | 57_E | 1.528 | 0.81 |
| 58_L | 99_M | 1.435 | 0.75 |
| 43_N | 98_D | 1.420 | 0.74 |
| 57_E | 98_D | 1.419 | 0.74 |
| 15_D | 56_D | 1.392 | 0.72 |
| 21_Q | 62_Q | 1.361 | 0.69 |
| 31_Y | 113_H | 1.360 | 0.69 |
| 84_W | 98_D | 1.360 | 0.69 |
| 36_C | 40_C | 1.346 | 0.68 |
| 68_N | 109_L | 1.344 | 0.68 |
| 16_G | 43_N | 1.313 | 0.65 |
| 71_G | 112_D | 1.271 | 0.61 |
| 45_C | 119_Q | 1.267 | 0.61 |
| 78_Q | 92_G | 1.254 | 0.60 |
| 54_C | 59_C | 1.253 | 0.60 |
| 54_C | 60_C | 1.253 | 0.60 |
| 24_Y | 65_W | 1.239 | 0.58 |
| 69_S | 110_T | 1.230 | 0.58 |
| 59_C | 73_C | 1.205 | 0.55 |
| 60_C | 73_C | 1.205 | 0.55 |
| 96_T | 99_M | 1.202 | 0.55 |
| 65_W | 80_Q | 1.181 | 0.53 |
| 11_R | 93_R | 1.164 | 0.51 |
| 16_G | 84_W | 1.162 | 0.51 |
| 27_T | 68_N | 1.138 | 0.49 |
| 19_C | 32_C | 1.131 | 0.48 |
| 52_K | 85_R | 1.129 | 0.48 |
| 12_V | 15_D | 1.122 | 0.47 |
| 31_Y | 119_Q | 1.118 | 0.47 |
| 72_H | 88_K | 1.116 | 0.47 |
| 36_C | 77_C | 1.114 | 0.47 |
| 17_Y | 99_M | 1.099 | 0.45 |
| 15_D | 97_E | 1.097 | 0.45 |
| 33_G | 113_H | 1.088 | 0.44 |
| 28_T | 69_S | 1.087 | 0.44 |
| 69_S | 93_R | 1.083 | 0.44 |
| 39_Q | 65_W | 1.078 | 0.43 |
| 78_Q | 119_Q | 1.071 | 0.43 |
| 28_T | 31_Y | 1.071 | 0.43 |
| 66_C | 73_C | 1.068 | 0.42 |
| 67_G | 73_C | 1.068 | 0.42 |
| 68_N | 106_W | 1.068 | 0.42 |
| 54_C | 73_C | 1.056 | 0.41 |
| 42_Y | 83_Y | 1.052 | 0.41 |
| 56_D | 97_E | 1.040 | 0.40 |
| 39_Q | 121_Q | 1.027 | 0.39 |
| 99_M | 109_L | 1.026 | 0.38 |
| 54_C | 95_C | 1.023 | 0.38 |
| 22_W | 63_Y | 1.017 | 0.38 |
| 68_N | 113_H | 1.014 | 0.37 |
| 14_P | 79_S | 1.012 | 0.37 |
| 21_Q | 103_Q | 1.012 | 0.37 |
| 77_C | 81_C | 1.007 | 0.37 |
| 88_K | 109_L | 1.004 | 0.37 |
| 31_Y | 98_D | 1.002 | 0.36 |
| 20_S | 32_C | 1.000 | 0.36 |
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 | |
| 1ulkA | 2 | 1 | 100 | 0.155 | Contact Map |
| 1uhaA | 1 | 0.656 | 99.9 | 0.44 | Contact Map |
| 1en2A | 1 | 0.632 | 99.8 | 0.493 | Contact Map |
| 4mpiA | 2 | 0.352 | 99.1 | 0.694 | Contact Map |
| 2lb7A | 1 | 0.344 | 99 | 0.7 | Contact Map |
| 2dkvA | 1 | 0.336 | 99 | 0.7 | Contact Map |
| 1wkxA | 1 | 0.328 | 98.9 | 0.712 | Contact Map |
| 1p9gA | 1 | 0.312 | 98.8 | 0.725 | Contact Map |
| 2kusA | 1 | 0.256 | 98 | 0.781 | Contact Map |
| 2uvoA | 4 | 0.984 | 97.9 | 0.785 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)