| ETR1 |
| ID: | 1499823886 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 96 (96) | ||
| Sequences: | 306 (213) | ||
| Seq/Len: | 3.188 | ||
| Nf(neff/√len): | 21.7 |
HHblits Results: (2016_02)
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: 3.188).
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 |
| 17_F | 51_A | 3.017 | 1.00 |
| 55_I | 74_A | 2.159 | 1.00 |
| 13_A | 54_L | 2.143 | 1.00 |
| 20_P | 46_I | 1.984 | 1.00 |
| 56_N | 75_K | 1.689 | 0.98 |
| 10_F | 57_L | 1.681 | 0.98 |
| 42_F | 46_I | 1.659 | 0.98 |
| 35_Y | 70_V | 1.591 | 0.98 |
| 9_D | 75_K | 1.579 | 0.97 |
| 34_P | 43_G | 1.470 | 0.96 |
| 33_F | 93_I | 1.460 | 0.95 |
| 61_T | 66_T | 1.460 | 0.95 |
| 72_T | 76_V | 1.415 | 0.94 |
| 61_T | 68_A | 1.396 | 0.94 |
| 84_A | 95_D | 1.300 | 0.90 |
| 38_V | 48_L | 1.295 | 0.90 |
| 21_L | 81_V | 1.256 | 0.88 |
| 34_P | 90_V | 1.251 | 0.88 |
| 46_I | 49_C | 1.242 | 0.87 |
| 12_I | 79_A | 1.241 | 0.87 |
| 23_L | 39_L | 1.241 | 0.87 |
| 91_H | 95_D | 1.238 | 0.87 |
| 41_Q | 81_V | 1.215 | 0.85 |
| 46_I | 52_T | 1.196 | 0.84 |
| 46_I | 78_T | 1.192 | 0.84 |
| 45_F | 53_H | 1.192 | 0.84 |
| 35_Y | 95_D | 1.190 | 0.84 |
| 22_E | 90_V | 1.178 | 0.83 |
| 36_R | 48_L | 1.174 | 0.83 |
| 19_I | 85_T | 1.165 | 0.82 |
| 27_V | 36_R | 1.164 | 0.82 |
| 34_P | 47_V | 1.161 | 0.82 |
| 11_F | 83_C | 1.144 | 0.80 |
| 6_Y | 60_F | 1.121 | 0.79 |
| 58_W | 63_H | 1.101 | 0.77 |
| 56_N | 71_M | 1.098 | 0.76 |
| 53_H | 82_S | 1.093 | 0.76 |
| 16_Y | 53_H | 1.093 | 0.76 |
| 31_A | 93_I | 1.084 | 0.75 |
| 44_A | 81_V | 1.061 | 0.73 |
| 10_F | 55_I | 1.053 | 0.72 |
| 78_T | 82_S | 1.053 | 0.72 |
| 41_Q | 61_T | 1.052 | 0.72 |
| 38_V | 81_V | 1.051 | 0.72 |
| 13_A | 86_A | 1.047 | 0.72 |
| 16_Y | 85_T | 1.037 | 0.71 |
| 84_A | 88_M | 1.030 | 0.70 |
| 53_H | 85_T | 1.005 | 0.67 |
| 20_P | 49_C | 1.001 | 0.67 |
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 | |
| 2kzqA | 1 | 0.2708 | 0.8 | 0.939 | Contact Map |
| 2kdrX | 1 | 0.2708 | 0.7 | 0.94 | Contact Map |
| 2zhyA | 3 | 0.2917 | 0.7 | 0.941 | Contact Map |
| 1pv5A | 1 | 0.4792 | 0.7 | 0.941 | Contact Map |
| 2nt8A | 1 | 0.3229 | 0.7 | 0.942 | Contact Map |
| 3ci3A | 1 | 0.3854 | 0.6 | 0.943 | Contact Map |
| 1wvtA | 3 | 0.3021 | 0.6 | 0.943 | Contact Map |
| 4fasA | 3 | 0 | 0.6 | 0.945 | Contact Map |
| 2mc7A | 1 | 0.3125 | 0.6 | 0.946 | Contact Map |
| 3fzeA | 1 | 0.2708 | 0.5 | 0.946 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)