| PKC C1A |
| ID: | 1501861118 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 100 (88) | ||
| Sequences: | 181 (102.8) | ||
| Seq/Len: | 2.057 | ||
| Nf(neff/√len): | 11.0 |
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: 2.057).
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 |
| 74_V | 79_H | 2.771 | 1.00 |
| 82_V | 87_P | 1.733 | 0.97 |
| 29_K | 84_F | 1.655 | 0.96 |
| 29_K | 35_K | 1.633 | 0.95 |
| 90_D | 96_D | 1.631 | 0.95 |
| 43_F | 49_F | 1.558 | 0.93 |
| 57_I | 61_G | 1.537 | 0.93 |
| 32_H | 41_A | 1.534 | 0.93 |
| 13_S | 16_V | 1.423 | 0.88 |
| 47_P | 56_F | 1.414 | 0.88 |
| 48_T | 56_F | 1.336 | 0.84 |
| 49_F | 56_F | 1.334 | 0.84 |
| 90_D | 94_D | 1.304 | 0.82 |
| 73_V | 79_H | 1.295 | 0.81 |
| 26_L | 30_N | 1.289 | 0.81 |
| 33_E | 38_K | 1.287 | 0.80 |
| 42_R | 72_F | 1.260 | 0.79 |
| 52_H | 81_F | 1.254 | 0.78 |
| 76_K | 79_H | 1.230 | 0.76 |
| 57_I | 77_R | 1.225 | 0.76 |
| 26_L | 99_R | 1.218 | 0.75 |
| 27_R | 33_E | 1.209 | 0.74 |
| 74_V | 77_R | 1.172 | 0.71 |
| 38_K | 68_Q | 1.171 | 0.71 |
| 31_V | 34_V | 1.153 | 0.69 |
| 31_V | 49_F | 1.146 | 0.69 |
| 52_H | 77_R | 1.129 | 0.67 |
| 97_D | 100_S | 1.118 | 0.66 |
| 82_V | 86_C | 1.116 | 0.66 |
| 22_R | 58_W | 1.111 | 0.65 |
| 30_N | 65_F | 1.109 | 0.65 |
| 46_Q | 62_K | 1.107 | 0.65 |
| 90_D | 95_T | 1.102 | 0.64 |
| 28_Q | 41_A | 1.102 | 0.64 |
| 70_C | 78_C | 1.098 | 0.64 |
| 24_G | 88_G | 1.091 | 0.63 |
| 43_F | 48_T | 1.091 | 0.63 |
| 29_K | 83_T | 1.082 | 0.62 |
| 26_L | 35_K | 1.081 | 0.62 |
| 30_N | 41_A | 1.073 | 0.61 |
| 63_Q | 76_K | 1.071 | 0.61 |
| 43_F | 47_P | 1.067 | 0.61 |
| 30_N | 51_S | 1.039 | 0.57 |
| 28_Q | 33_E | 1.039 | 0.57 |
| 43_F | 46_Q | 1.025 | 0.56 |
| 81_F | 92_G | 1.011 | 0.54 |
| 75_H | 86_C | 1.009 | 0.54 |
| 47_P | 58_W | 1.007 | 0.54 |
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 | |
| 3pfqA | 1 | 0 | 100 | 0.313 | Contact Map |
| 2ennA | 1 | 0.77 | 99.9 | 0.443 | Contact Map |
| 4l9mA | 1 | 0.88 | 99.9 | 0.456 | Contact Map |
| 2yuuA | 1 | 0.81 | 99.8 | 0.48 | Contact Map |
| 2rowA | 1 | 0.79 | 99.8 | 0.535 | Contact Map |
| 3uejA | 2 | 0.65 | 99.7 | 0.563 | Contact Map |
| 2db6A | 1 | 0.73 | 99.7 | 0.568 | Contact Map |
| 1y8fA | 1 | 0.51 | 99.7 | 0.574 | Contact Map |
| 2enzA | 1 | 0.65 | 99.6 | 0.58 | Contact Map |
| 2fnfX | 1 | 0.58 | 99.6 | 0.585 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)