| Q8NNN6_CORGL |
| ID: | 1509117480 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 152 (140) | ||
| Sequences: | 793 (533.2) | ||
| Seq/Len: | 5.664 | ||
| Nf(neff/√len): | 45.1 |
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: 5.664).
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 |
| 100_L | 108_I | 2.846 | 1.00 |
| 85_G | 117_F | 2.784 | 1.00 |
| 84_G | 115_L | 2.440 | 1.00 |
| 87_F | 119_L | 2.201 | 1.00 |
| 120_R | 136_E | 2.073 | 1.00 |
| 73_E | 127_D | 1.815 | 1.00 |
| 73_E | 99_L | 1.733 | 1.00 |
| 107_R | 110_D | 1.673 | 1.00 |
| 109_V | 113_A | 1.633 | 0.99 |
| 84_G | 117_F | 1.626 | 0.99 |
| 21_E | 24_Y | 1.613 | 0.99 |
| 69_I | 132_A | 1.589 | 0.99 |
| 74_L | 83_I | 1.585 | 0.99 |
| 76_S | 79_D | 1.508 | 0.99 |
| 118_A | 121_G | 1.479 | 0.99 |
| 127_D | 133_V | 1.466 | 0.99 |
| 87_F | 115_L | 1.445 | 0.98 |
| 98_S | 113_A | 1.395 | 0.98 |
| 94_V | 130_T | 1.395 | 0.98 |
| 107_R | 113_A | 1.389 | 0.98 |
| 9_E | 16_Y | 1.389 | 0.98 |
| 105_A | 109_V | 1.367 | 0.98 |
| 96_D | 126_I | 1.365 | 0.98 |
| 6_K | 27_D | 1.317 | 0.97 |
| 118_A | 133_V | 1.308 | 0.97 |
| 88_R | 120_R | 1.291 | 0.96 |
| 70_V | 86_A | 1.287 | 0.96 |
| 4_L | 14_A | 1.283 | 0.96 |
| 78_E | 104_E | 1.272 | 0.96 |
| 106_R | 131_F | 1.270 | 0.96 |
| 5_K | 13_L | 1.270 | 0.96 |
| 83_I | 137_L | 1.261 | 0.96 |
| 75_H | 99_L | 1.239 | 0.95 |
| 66_Q | 139_N | 1.236 | 0.95 |
| 90_G | 136_E | 1.223 | 0.94 |
| 112_A | 116_C | 1.220 | 0.94 |
| 6_K | 124_Q | 1.204 | 0.94 |
| 112_A | 115_L | 1.198 | 0.94 |
| 45_D | 48_Y | 1.195 | 0.94 |
| 40_E | 49_A | 1.193 | 0.93 |
| 125_K | 131_F | 1.179 | 0.93 |
| 127_D | 130_T | 1.159 | 0.92 |
| 106_R | 122_K | 1.149 | 0.92 |
| 97_M | 127_D | 1.145 | 0.92 |
| 109_V | 131_F | 1.130 | 0.91 |
| 116_C | 123_M | 1.120 | 0.90 |
| 123_M | 133_V | 1.107 | 0.90 |
| 68_T | 95_F | 1.102 | 0.89 |
| 71_P | 144_E | 1.101 | 0.89 |
| 109_V | 132_A | 1.100 | 0.89 |
| 98_S | 126_I | 1.098 | 0.89 |
| 1_M | 7_T | 1.088 | 0.89 |
| 92_A | 138_S | 1.085 | 0.88 |
| 28_E | 49_A | 1.076 | 0.88 |
| 68_T | 97_M | 1.070 | 0.87 |
| 63_R | 103_E | 1.065 | 0.87 |
| 76_S | 80_A | 1.063 | 0.87 |
| 137_L | 141_S | 1.047 | 0.86 |
| 47_G | 50_P | 1.032 | 0.85 |
| 77_F | 102_R | 1.031 | 0.85 |
| 67_S | 137_L | 1.029 | 0.84 |
| 88_R | 130_T | 1.020 | 0.84 |
| 79_D | 128_S | 1.017 | 0.84 |
| 70_V | 91_D | 1.010 | 0.83 |
| 4_L | 7_T | 1.002 | 0.82 |
| 115_L | 119_L | 1.002 | 0.82 |
| 95_F | 140_I | 1.001 | 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 | |
| 3zihA | 2 | 0.5263 | 100 | 0.352 | Contact Map |
| 3p04A | 2 | 0.5132 | 100 | 0.36 | Contact Map |
| 3zieA | 6 | 0.5461 | 99.9 | 0.408 | Contact Map |
| 3zigA | 2 | 0.5329 | 99.9 | 0.417 | Contact Map |
| 1k0wA | 6 | 0.3487 | 24.6 | 0.927 | Contact Map |
| 4pj2A | 2 | 0.4211 | 18.3 | 0.931 | Contact Map |
| 2opiA | 2 | 0.3618 | 14.3 | 0.935 | Contact Map |
| 2fk5A | 2 | 0.3618 | 12.1 | 0.937 | Contact Map |
| 3mioA | 2 | 0.4868 | 10.2 | 0.938 | Contact Map |
| 4m6rA | 4 | 0.375 | 10.1 | 0.939 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)