| C-terminal_domain |
| ID: | 1513019806 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 50% gaps before running GREMLIN. |
| Length: | 124 (124) | ||
| Sequences: | 310 (87.1) | ||
| Seq/Len: | 2.500 | ||
| Nf(neff/√len): | 7.8 |
Jackhmmer Results: (2016_04)
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: 2.500).
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_A | 41_L | 3.368 | 1.00 |
| 31_K | 54_N | 2.156 | 1.00 |
| 22_F | 48_L | 2.048 | 1.00 |
| 63_E | 67_P | 1.974 | 0.99 |
| 92_V | 106_V | 1.959 | 0.99 |
| 42_A | 48_L | 1.899 | 0.99 |
| 41_L | 47_L | 1.719 | 0.98 |
| 22_F | 42_A | 1.666 | 0.97 |
| 31_K | 58_D | 1.654 | 0.97 |
| 89_I | 106_V | 1.636 | 0.97 |
| 21_A | 42_A | 1.516 | 0.94 |
| 14_R | 19_T | 1.508 | 0.94 |
| 50_F | 54_N | 1.452 | 0.92 |
| 120_R | 123_G | 1.417 | 0.91 |
| 28_A | 37_V | 1.404 | 0.91 |
| 44_K | 49_P | 1.395 | 0.90 |
| 68_H | 110_D | 1.333 | 0.87 |
| 47_L | 57_L | 1.327 | 0.87 |
| 45_D | 57_L | 1.312 | 0.86 |
| 89_I | 92_V | 1.309 | 0.86 |
| 38_H | 45_D | 1.301 | 0.86 |
| 100_L | 103_R | 1.281 | 0.85 |
| 37_V | 41_L | 1.266 | 0.84 |
| 85_E | 92_V | 1.265 | 0.84 |
| 110_D | 117_M | 1.258 | 0.83 |
| 70_S | 106_V | 1.246 | 0.82 |
| 77_F | 87_W | 1.241 | 0.82 |
| 81_P | 87_W | 1.238 | 0.82 |
| 74_P | 85_E | 1.229 | 0.81 |
| 76_S | 80_V | 1.206 | 0.79 |
| 51_H | 56_N | 1.193 | 0.78 |
| 95_A | 103_R | 1.182 | 0.77 |
| 77_F | 81_P | 1.176 | 0.77 |
| 21_A | 41_L | 1.173 | 0.77 |
| 38_H | 42_A | 1.165 | 0.76 |
| 15_Q | 33_E | 1.162 | 0.76 |
| 63_E | 66_A | 1.157 | 0.75 |
| 8_G | 14_R | 1.153 | 0.75 |
| 9_R | 12_R | 1.151 | 0.75 |
| 70_S | 89_I | 1.148 | 0.74 |
| 52_Y | 56_N | 1.137 | 0.73 |
| 1_W | 38_H | 1.130 | 0.73 |
| 6_I | 39_K | 1.129 | 0.73 |
| 111_S | 114_G | 1.129 | 0.73 |
| 78_D | 91_N | 1.128 | 0.73 |
| 79_Q | 85_E | 1.125 | 0.72 |
| 42_A | 50_F | 1.119 | 0.72 |
| 26_L | 38_H | 1.116 | 0.71 |
| 80_V | 87_W | 1.107 | 0.71 |
| 44_K | 47_L | 1.104 | 0.70 |
| 1_W | 15_Q | 1.098 | 0.70 |
| 10_S | 23_A | 1.097 | 0.70 |
| 77_F | 80_V | 1.090 | 0.69 |
| 76_S | 87_W | 1.079 | 0.68 |
| 78_D | 85_E | 1.079 | 0.68 |
| 62_Q | 65_P | 1.072 | 0.67 |
| 29_S | 47_L | 1.072 | 0.67 |
| 12_R | 23_A | 1.067 | 0.66 |
| 85_E | 91_N | 1.054 | 0.65 |
| 24_A | 47_L | 1.053 | 0.65 |
| 74_P | 79_Q | 1.047 | 0.64 |
| 17_T | 22_F | 1.043 | 0.64 |
| 14_R | 18_A | 1.027 | 0.62 |
| 70_S | 79_Q | 1.024 | 0.62 |
| 75_S | 83_E | 1.018 | 0.61 |
| 44_K | 48_L | 1.017 | 0.61 |
| 71_P | 81_P | 1.014 | 0.61 |
| 76_S | 81_P | 1.011 | 0.60 |
| 28_A | 36_K | 1.009 | 0.60 |
| 11_P | 26_L | 1.002 | 0.59 |
| 22_F | 39_K | 1.001 | 0.59 |
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 | |
| 3b9pA | 1 | 0.5323 | 96.3 | 0.908 | Contact Map |
| 4w5wA | 1 | 0.3952 | 95.9 | 0.911 | Contact Map |
| 4ww0A | 3 | 0 | 95.8 | 0.911 | Contact Map |
| 1ofhA | 3 | 0.5242 | 95.8 | 0.912 | Contact Map |
| 1um8A | 1 | 0.4113 | 95.7 | 0.913 | Contact Map |
| 2p5tB | 4 | 0.4113 | 95.6 | 0.913 | Contact Map |
| 1l8qA | 1 | 0.4597 | 95.6 | 0.913 | Contact Map |
| 2qbyA | 1 | 0.5 | 95.6 | 0.913 | Contact Map |
| 4qhsA | 7 | 0.3629 | 95.4 | 0.914 | Contact Map |
| 3eieA | 1 | 0.4758 | 95.4 | 0.914 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)