| Ter |
| ID: | 1501797639 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 95 (87) | ||
| Sequences: | 228 (204.9) | ||
| Seq/Len: | 2.621 | ||
| Nf(neff/√len): | 22.0 |
Jackhmmer Results: (2016_04)
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: 2.621).
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 |
| 84_T | 89_S | 2.929 | 1.00 |
| 32_S | 35_H | 2.804 | 1.00 |
| 58_V | 61_N | 2.474 | 1.00 |
| 82_Y | 89_S | 2.180 | 1.00 |
| 21_I | 44_A | 2.010 | 0.99 |
| 24_D | 57_K | 1.674 | 0.97 |
| 83_Y | 88_V | 1.660 | 0.97 |
| 72_D | 90_H | 1.584 | 0.96 |
| 73_L | 82_Y | 1.516 | 0.95 |
| 23_F | 56_K | 1.440 | 0.93 |
| 82_Y | 90_H | 1.440 | 0.93 |
| 72_D | 82_Y | 1.420 | 0.92 |
| 26_G | 35_H | 1.411 | 0.92 |
| 37_F | 47_I | 1.381 | 0.91 |
| 35_H | 50_G | 1.346 | 0.89 |
| 31_C | 37_F | 1.304 | 0.87 |
| 37_F | 89_S | 1.281 | 0.86 |
| 48_K | 57_K | 1.271 | 0.85 |
| 42_I | 50_G | 1.255 | 0.84 |
| 29_I | 37_F | 1.240 | 0.83 |
| 20_H | 28_E | 1.239 | 0.83 |
| 70_L | 82_Y | 1.192 | 0.79 |
| 18_Y | 49_V | 1.178 | 0.78 |
| 25_D | 56_K | 1.173 | 0.78 |
| 20_H | 30_K | 1.156 | 0.76 |
| 37_F | 42_I | 1.156 | 0.76 |
| 70_L | 91_N | 1.130 | 0.74 |
| 34_N | 41_K | 1.117 | 0.73 |
| 36_S | 92_C | 1.116 | 0.73 |
| 14_Y | 40_D | 1.115 | 0.73 |
| 82_Y | 91_N | 1.114 | 0.73 |
| 72_D | 92_C | 1.106 | 0.72 |
| 81_L | 89_S | 1.101 | 0.71 |
| 37_F | 74_L | 1.085 | 0.70 |
| 50_G | 58_V | 1.079 | 0.69 |
| 23_F | 35_H | 1.032 | 0.64 |
| 77_G | 86_G | 1.029 | 0.64 |
| 73_L | 89_S | 1.023 | 0.63 |
| 56_K | 68_I | 1.019 | 0.63 |
| 72_D | 91_N | 1.012 | 0.62 |
| 13_V | 92_C | 1.010 | 0.62 |
| 16_P | 33_D | 1.006 | 0.61 |
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 | |
| 4e2uA | 1 | 0.9684 | 99.8 | 0.355 | Contact Map |
| 1mi8A | 1 | 0.9579 | 99.8 | 0.369 | Contact Map |
| 3nzmA | 1 | 0.9263 | 99.8 | 0.376 | Contact Map |
| 2imzA | 2 | 0.9263 | 99.8 | 0.383 | Contact Map |
| 1am2A | 1 | 0.9368 | 99.8 | 0.384 | Contact Map |
| 4o1rA | 1 | 0.9368 | 99.8 | 0.395 | Contact Map |
| 2lcjA | 1 | 0.9474 | 99.8 | 0.395 | Contact Map |
| 4o1sA | 2 | 0.9579 | 99.8 | 0.398 | Contact Map |
| 2in0A | 1 | 0.9368 | 99.7 | 0.409 | Contact Map |
| 2jmzA | 1 | 0.9895 | 99.7 | 0.417 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)