| ParB 200-282 |
| ID: | 1432054982 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 83 (80) | ||
| Sequences: | 1585 (1280.5) | ||
| Seq/Len: | 19.812 | ||
| Nf(neff/√len): | 143.2 |
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: 19.812).
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 |
| 4_L | 12_L | 3.373 | 1.00 |
| 8_Q | 11_Q | 3.289 | 1.00 |
| 70_D | 73_R | 2.822 | 1.00 |
| 54_R | 65_F | 2.818 | 1.00 |
| 73_R | 77_L | 2.265 | 1.00 |
| 31_K | 39_E | 2.053 | 1.00 |
| 41_Y | 79_S | 2.000 | 1.00 |
| 48_T | 63_I | 1.957 | 1.00 |
| 68_N | 72_D | 1.894 | 1.00 |
| 4_L | 9_L | 1.859 | 1.00 |
| 9_L | 13_I | 1.837 | 1.00 |
| 4_L | 8_Q | 1.760 | 1.00 |
| 67_S | 70_D | 1.412 | 1.00 |
| 5_N | 8_Q | 1.397 | 0.99 |
| 7_R | 10_E | 1.393 | 0.99 |
| 66_F | 70_D | 1.303 | 0.99 |
| 11_Q | 14_Q | 1.295 | 0.99 |
| 37_E | 41_Y | 1.294 | 0.99 |
| 60_K | 64_E | 1.258 | 0.99 |
| 9_L | 12_L | 1.256 | 0.99 |
| 34_V | 37_E | 1.239 | 0.98 |
| 40_S | 44_N | 1.211 | 0.98 |
| 39_E | 43_Q | 1.208 | 0.98 |
| 42_L | 46_F | 1.194 | 0.98 |
| 46_F | 63_I | 1.178 | 0.98 |
| 40_S | 66_F | 1.138 | 0.97 |
| 42_L | 50_V | 1.136 | 0.97 |
| 6_V | 9_L | 1.128 | 0.97 |
| 71_L | 75_L | 1.123 | 0.97 |
| 72_D | 76_E | 1.119 | 0.96 |
| 59_G | 67_S | 1.099 | 0.96 |
| 42_L | 75_L | 1.098 | 0.96 |
| 53_K | 62_E | 1.095 | 0.96 |
| 59_G | 65_F | 1.087 | 0.96 |
| 38_R | 59_G | 1.085 | 0.96 |
| 38_R | 71_L | 1.039 | 0.94 |
| 33_A | 37_E | 1.013 | 0.93 |
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 | |
| 3mkyB | 2 | 0.3133 | 97.9 | 0.541 | Contact Map |
| 1zx4A | 2 | 0.9398 | 75.4 | 0.77 | Contact Map |
| 1vz0A | 8 | 0.2048 | 59.1 | 0.794 | Contact Map |
| 2cu1A | 1 | 0.9157 | 11.8 | 0.857 | Contact Map |
| 2c60A | 1 | 0.8434 | 11.2 | 0.859 | Contact Map |
| 3cjlA | 2 | 0.506 | 10.5 | 0.86 | Contact Map |
| 2nptB | 2 | 0.8795 | 9.9 | 0.862 | Contact Map |
| 2jrhA | 1 | 0.8554 | 9.4 | 0.864 | Contact Map |
| 3kdgA | 2 | 0.5783 | 7 | 0.871 | Contact Map |
| 4g08A | 1 | 0.6747 | 6.1 | 0.875 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)