| tasA_1 30-75 |
| ID: | 1410879236 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 46 (46) | ||
| Sequences: | 81 (57.3) | ||
| Seq/Len: | 1.761 | ||
| Nf(neff/√len): | 8.4 |
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: 1.761).
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 |
| 25_V | 30_I | 2.417 | 1.00 |
| 3_T | 6_Q | 1.864 | 0.98 |
| 31_K | 35_W | 1.842 | 0.97 |
| 8_N | 19_V | 1.632 | 0.94 |
| 1_S | 8_N | 1.497 | 0.89 |
| 8_N | 18_D | 1.457 | 0.87 |
| 20_N | 28_E | 1.383 | 0.83 |
| 24_Q | 27_M | 1.364 | 0.82 |
| 27_M | 39_D | 1.335 | 0.80 |
| 10_F | 14_T | 1.325 | 0.79 |
| 17_L | 25_V | 1.270 | 0.75 |
| 4_A | 17_L | 1.243 | 0.73 |
| 10_F | 20_N | 1.229 | 0.72 |
| 1_S | 21_P | 1.209 | 0.70 |
| 2_D | 15_I | 1.197 | 0.69 |
| 2_D | 13_G | 1.147 | 0.64 |
| 17_L | 40_F | 1.143 | 0.64 |
| 20_N | 23_M | 1.141 | 0.63 |
| 20_N | 41_E | 1.140 | 0.63 |
| 3_T | 43_L | 1.110 | 0.60 |
| 4_A | 7_T | 1.105 | 0.60 |
| 10_F | 13_G | 1.085 | 0.58 |
| 24_Q | 41_E | 1.037 | 0.53 |
| 25_V | 38_R | 1.015 | 0.50 |
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 | |
| 2qsvA | 1 | 0.6304 | 41.7 | 0.823 | Contact Map |
| 2e6jA | 1 | 0.8261 | 34.5 | 0.831 | Contact Map |
| 2vb2X | 1 | 0.9565 | 28.7 | 0.837 | Contact Map |
| 2l55A | 1 | 0.9565 | 28.2 | 0.838 | Contact Map |
| 2qcpX | 1 | 0.9565 | 28 | 0.838 | Contact Map |
| 4oleA | 4 | 0.8478 | 27.3 | 0.839 | Contact Map |
| 2lwyA | 1 | 0.7826 | 23.5 | 0.844 | Contact Map |
| 3qisA | 1 | 0.6739 | 21.5 | 0.847 | Contact Map |
| 1at0A | 1 | 0.7174 | 16.1 | 0.856 | Contact Map |
| 1dfaA | 1 | 0.8043 | 15.5 | 0.856 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)