| Caulobacter ParE |
| ID: | 1414433675 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 96 (95) | ||
| Sequences: | 3730 (3217.6) | ||
| Seq/Len: | 39.263 | ||
| Nf(neff/√len): | 330.1 |
Jackhmmer Results: (2014_04_16)
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: 39.263).
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 |
| 13_D | 83_R | 2.884 | 1.00 |
| 6_L | 41_I | 2.641 | 1.00 |
| 43_M | 50_M | 2.330 | 1.00 |
| 5_R | 78_R | 2.282 | 1.00 |
| 63_R | 70_V | 1.993 | 1.00 |
| 36_E | 66_S | 1.921 | 1.00 |
| 54_D | 63_R | 1.911 | 1.00 |
| 52_Q | 63_R | 1.911 | 1.00 |
| 49_G | 75_V | 1.902 | 1.00 |
| 26_G | 29_Q | 1.900 | 1.00 |
| 51_G | 64_C | 1.864 | 1.00 |
| 4_Y | 45_A | 1.821 | 1.00 |
| 18_W | 31_A | 1.647 | 1.00 |
| 11_K | 15_D | 1.618 | 1.00 |
| 61_Y | 82_I | 1.522 | 1.00 |
| 38_Q | 42_E | 1.522 | 1.00 |
| 14_L | 34_A | 1.461 | 1.00 |
| 36_E | 67_G | 1.445 | 1.00 |
| 74_R | 80_E | 1.423 | 1.00 |
| 21_S | 25_W | 1.422 | 1.00 |
| 21_S | 33_Y | 1.402 | 0.99 |
| 21_S | 29_Q | 1.378 | 0.99 |
| 41_I | 71_V | 1.371 | 0.99 |
| 25_W | 29_Q | 1.370 | 0.99 |
| 74_R | 82_I | 1.339 | 0.99 |
| 21_S | 24_R | 1.319 | 0.99 |
| 85_L | 89_M | 1.319 | 0.99 |
| 63_R | 72_F | 1.292 | 0.99 |
| 28_E | 32_D | 1.264 | 0.99 |
| 51_G | 73_Y | 1.260 | 0.99 |
| 29_Q | 32_D | 1.237 | 0.98 |
| 47_H | 50_M | 1.218 | 0.98 |
| 76_G | 80_E | 1.208 | 0.98 |
| 18_W | 30_A | 1.205 | 0.98 |
| 70_V | 87_Q | 1.189 | 0.98 |
| 33_Y | 67_G | 1.184 | 0.98 |
| 16_D | 89_M | 1.183 | 0.98 |
| 34_A | 38_Q | 1.183 | 0.98 |
| 72_F | 91_A | 1.171 | 0.98 |
| 44_I | 64_C | 1.166 | 0.97 |
| 18_W | 34_A | 1.162 | 0.97 |
| 5_R | 80_E | 1.130 | 0.97 |
| 6_L | 10_A | 1.117 | 0.96 |
| 40_T | 64_C | 1.115 | 0.96 |
| 72_F | 85_L | 1.113 | 0.96 |
| 10_A | 81_I | 1.111 | 0.96 |
| 25_W | 69_H | 1.094 | 0.96 |
| 86_H | 89_M | 1.086 | 0.96 |
| 3_P | 78_R | 1.080 | 0.95 |
| 17_I | 84_V | 1.074 | 0.95 |
| 4_Y | 41_I | 1.073 | 0.95 |
| 40_T | 43_M | 1.056 | 0.95 |
| 3_P | 77_V | 1.046 | 0.94 |
| 21_S | 69_H | 1.028 | 0.94 |
| 7_S | 82_I | 1.028 | 0.94 |
| 66_S | 71_V | 1.008 | 0.93 |
| 21_S | 30_A | 1.002 | 0.92 |
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 | |
| 3kxeA | 2 | 0.9792 | 99.8 | 0.158 | Contact Map |
| 3g5oB | 2 | 0.8125 | 98.9 | 0.489 | Contact Map |
| 2kheA | 1 | 0.8646 | 98.8 | 0.494 | Contact Map |
| 1wmiA | 2 | 0.8125 | 98.7 | 0.526 | Contact Map |
| 3bpqB | 2 | 0.8333 | 98.6 | 0.528 | Contact Map |
| 4fxiA | 3 | 0.8542 | 98.5 | 0.548 | Contact Map |
| 2a6sA | 4 | 0.8125 | 98.4 | 0.563 | Contact Map |
| 2otrA | 1 | 0.8438 | 98.4 | 0.567 | Contact Map |
| 4lttA | 1 | 0.875 | 98.3 | 0.58 | Contact Map |
| 4ml2A | 1 | 0.8542 | 98.1 | 0.595 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)