| 4Q2Q |
| ID: | 1427309745 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 102 (92) | ||
| Sequences: | 1576 (907.1) | ||
| Seq/Len: | 17.130 | ||
| Nf(neff/√len): | 94.6 |
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: 17.130).
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 |
| 47_L | 86_A | 4.303 | 1.00 |
| 55_R | 85_L | 2.665 | 1.00 |
| 66_R | 70_V | 2.368 | 1.00 |
| 61_F | 64_I | 2.187 | 1.00 |
| 9_K | 88_K | 2.109 | 1.00 |
| 31_I | 69_A | 2.081 | 1.00 |
| 39_D | 43_A | 2.060 | 1.00 |
| 52_Q | 87_Q | 1.969 | 1.00 |
| 61_F | 69_A | 1.809 | 1.00 |
| 55_R | 58_N | 1.766 | 1.00 |
| 18_S | 41_P | 1.725 | 1.00 |
| 65_I | 68_E | 1.720 | 1.00 |
| 12_K | 83_T | 1.623 | 1.00 |
| 36_V | 40_S | 1.579 | 1.00 |
| 30_G | 52_Q | 1.575 | 1.00 |
| 24_A | 34_A | 1.529 | 1.00 |
| 69_A | 72_F | 1.448 | 1.00 |
| 67_E | 71_L | 1.439 | 1.00 |
| 59_V | 72_F | 1.420 | 1.00 |
| 14_R | 81_E | 1.385 | 0.99 |
| 19_V | 22_R | 1.365 | 0.99 |
| 38_E | 43_A | 1.342 | 0.99 |
| 23_L | 31_I | 1.336 | 0.99 |
| 10_L | 85_L | 1.332 | 0.99 |
| 60_D | 63_N | 1.308 | 0.99 |
| 64_I | 69_A | 1.262 | 0.99 |
| 92_A | 95_G | 1.208 | 0.98 |
| 60_D | 64_I | 1.206 | 0.98 |
| 50_G | 54_L | 1.189 | 0.98 |
| 22_R | 34_A | 1.179 | 0.98 |
| 88_K | 91_A | 1.157 | 0.97 |
| 34_A | 37_L | 1.152 | 0.97 |
| 31_I | 73_L | 1.135 | 0.97 |
| 26_G | 66_R | 1.132 | 0.97 |
| 22_R | 37_L | 1.131 | 0.97 |
| 21_L | 66_R | 1.089 | 0.96 |
| 52_Q | 89_K | 1.080 | 0.95 |
| 25_G | 66_R | 1.049 | 0.94 |
| 12_K | 81_E | 1.025 | 0.93 |
| 58_N | 83_T | 1.022 | 0.93 |
| 64_I | 72_F | 1.013 | 0.93 |
| 36_V | 49_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 | |
| 2xkxA | 2 | 0.9804 | 99.8 | 0.246 | Contact Map |
| 2uzcA | 5 | 0.8431 | 99.7 | 0.312 | Contact Map |
| 2vspA | 4 | 0.7941 | 99.7 | 0.318 | Contact Map |
| 2q3gA | 2 | 0.8529 | 99.7 | 0.32 | Contact Map |
| 2z17A | 1 | 0.8137 | 99.7 | 0.337 | Contact Map |
| 3axaA | 2 | 0.8922 | 99.7 | 0.343 | Contact Map |
| 2w4fA | 1 | 0.8431 | 99.7 | 0.344 | Contact Map |
| 2q9vA | 1 | 0.8431 | 99.6 | 0.345 | Contact Map |
| 2r4hA | 3 | 0.8922 | 99.6 | 0.349 | Contact Map |
| 2vsvA | 2 | 0.8529 | 99.6 | 0.349 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)