| 50S ribosomal protein L24 Q5SHP9 |
| ID: | 1377321811 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 110 (104) | ||
| Sequences: | 1299 (858.5) | ||
| Seq/Len: | 12.490 | ||
| Nf(neff/√len): | 84.2 |
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: 12.490).
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 |
| 46_K | 62_E | 3.813 | 1.00 |
| 37_V | 72_V | 3.812 | 1.00 |
| 7_V | 27_V | 3.247 | 1.00 |
| 14_L | 24_V | 3.236 | 1.00 |
| 26_K | 40_E | 2.470 | 1.00 |
| 78_A | 104_G | 2.467 | 1.00 |
| 15_V | 42_V | 2.377 | 1.00 |
| 99_C | 102_C | 2.342 | 1.00 |
| 79_C | 102_C | 2.257 | 1.00 |
| 76_C | 102_C | 2.222 | 1.00 |
| 35_Y | 68_H | 2.154 | 1.00 |
| 46_K | 60_F | 2.118 | 1.00 |
| 20_Y | 23_R | 2.038 | 1.00 |
| 76_C | 99_C | 1.974 | 1.00 |
| 88_K | 98_V | 1.970 | 1.00 |
| 76_C | 79_C | 1.947 | 1.00 |
| 36_A | 66_P | 1.917 | 1.00 |
| 45_V | 65_A | 1.886 | 1.00 |
| 31_L | 38_I | 1.872 | 1.00 |
| 83_T | 99_C | 1.853 | 1.00 |
| 16_A | 73_R | 1.779 | 1.00 |
| 89_F | 95_K | 1.760 | 1.00 |
| 12_T | 24_V | 1.746 | 1.00 |
| 68_H | 71_K | 1.632 | 1.00 |
| 74_P | 106_L | 1.597 | 1.00 |
| 17_S | 71_K | 1.569 | 1.00 |
| 74_P | 85_V | 1.547 | 1.00 |
| 79_C | 99_C | 1.534 | 1.00 |
| 86_R | 100_A | 1.523 | 1.00 |
| 12_T | 26_K | 1.499 | 1.00 |
| 86_R | 98_V | 1.405 | 0.99 |
| 35_Y | 69_A | 1.394 | 0.99 |
| 96_I | 105_A | 1.382 | 0.99 |
| 14_L | 82_P | 1.337 | 0.99 |
| 44_I | 62_E | 1.334 | 0.99 |
| 31_L | 34_K | 1.244 | 0.98 |
| 79_C | 101_K | 1.243 | 0.98 |
| 37_V | 69_A | 1.237 | 0.98 |
| 52_S | 56_P | 1.227 | 0.98 |
| 23_R | 42_V | 1.222 | 0.98 |
| 52_S | 55_Y | 1.183 | 0.98 |
| 88_K | 91_E | 1.174 | 0.98 |
| 36_A | 68_H | 1.171 | 0.98 |
| 48_A | 60_F | 1.142 | 0.97 |
| 28_K | 40_E | 1.119 | 0.96 |
| 75_I | 80_G | 1.117 | 0.96 |
| 17_S | 21_K | 1.082 | 0.96 |
| 49_V | 61_I | 1.062 | 0.95 |
| 51_V | 58_G | 1.059 | 0.95 |
| 31_L | 36_A | 1.031 | 0.94 |
| 76_C | 83_T | 1.023 | 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 | |
| 3v2dY | 1 | 0.9727 | 100 | 0.102 | Contact Map |
| 3bboW | 1 | 1 | 100 | 0.107 | Contact Map |
| 2zjrR | 1 | 0.9455 | 100 | 0.135 | Contact Map |
| 4ce4Y | 1 | 0.9364 | 100 | 0.147 | Contact Map |
| 3j3wU | 1 | 0.9364 | 100 | 0.18 | Contact Map |
| 4kixU | 1 | 0.9182 | 100 | 0.186 | Contact Map |
| 3iz5Y | 1 | 0.7909 | 99.9 | 0.452 | Contact Map |
| 3j3bY | 1 | 0.8182 | 99.9 | 0.477 | Contact Map |
| 4a17S | 1 | 0.7727 | 99.9 | 0.478 | Contact Map |
| 3zf7Z | 1 | 0.7727 | 99.9 | 0.482 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)