| 1ris |
| ID: | 1486855082 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 97 (96) | ||
| Sequences: | 3098 (1877.9) | ||
| Seq/Len: | 32.271 | ||
| Nf(neff/√len): | 191.7 |
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: 32.271).
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 |
| 30_L | 35_A | 4.261 | 1.00 |
| 9_V | 58_G | 4.096 | 1.00 |
| 36_R | 66_E | 3.295 | 1.00 |
| 28_R | 32_N | 2.834 | 1.00 |
| 7_N | 62_W | 2.270 | 1.00 |
| 27_Q | 31_E | 2.160 | 1.00 |
| 15_D | 18_Q | 2.148 | 1.00 |
| 24_E | 28_R | 2.063 | 1.00 |
| 38_E | 66_E | 1.928 | 1.00 |
| 2_R | 92_K | 1.919 | 1.00 |
| 20_A | 42_E | 1.789 | 1.00 |
| 51_P | 56_P | 1.775 | 1.00 |
| 52_I | 87_R | 1.755 | 1.00 |
| 6_V | 65_V | 1.753 | 1.00 |
| 3_R | 66_E | 1.731 | 1.00 |
| 74_D | 77_R | 1.710 | 1.00 |
| 10_L | 22_E | 1.621 | 1.00 |
| 24_E | 27_Q | 1.617 | 1.00 |
| 11_N | 55_D | 1.608 | 1.00 |
| 6_V | 79_L | 1.600 | 1.00 |
| 75_L | 79_L | 1.567 | 1.00 |
| 42_E | 59_Y | 1.549 | 1.00 |
| 13_N | 55_D | 1.545 | 1.00 |
| 76_A | 80_R | 1.522 | 1.00 |
| 45_L | 57_Q | 1.498 | 1.00 |
| 67_M | 72_V | 1.489 | 1.00 |
| 64_Q | 93_S | 1.473 | 1.00 |
| 76_A | 88_V | 1.449 | 1.00 |
| 12_P | 55_D | 1.430 | 1.00 |
| 65_V | 90_V | 1.342 | 0.99 |
| 28_R | 31_E | 1.339 | 0.99 |
| 33_Y | 71_R | 1.336 | 0.99 |
| 77_R | 81_I | 1.322 | 0.99 |
| 55_D | 86_R | 1.299 | 0.99 |
| 27_Q | 40_V | 1.295 | 0.99 |
| 67_M | 71_R | 1.278 | 0.99 |
| 8_I | 63_Y | 1.260 | 0.99 |
| 25_I | 82_R | 1.253 | 0.99 |
| 6_V | 90_V | 1.220 | 0.98 |
| 47_R | 57_Q | 1.201 | 0.98 |
| 22_E | 84_N | 1.149 | 0.97 |
| 76_A | 90_V | 1.140 | 0.97 |
| 73_N | 77_R | 1.104 | 0.96 |
| 20_A | 24_E | 1.090 | 0.96 |
| 8_I | 61_L | 1.062 | 0.95 |
| 73_N | 76_A | 1.052 | 0.95 |
| 46_R | 60_F | 1.046 | 0.94 |
| 69_E | 73_N | 1.026 | 0.94 |
| 48_L | 86_R | 1.001 | 0.92 |
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 | |
| 1cqmA | 2 | 1 | 99.9 | -0.025 | Contact Map |
| 3r3tA | 2 | 0.9691 | 99.9 | -0.022 | Contact Map |
| 2j5aA | 1 | 1 | 99.9 | -0.007 | Contact Map |
| 1vmbA | 1 | 1 | 99.9 | -0.007 | Contact Map |
| 3bbnF | 1 | 1 | 99.9 | -0.003 | Contact Map |
| 4kiyF | 1 | 0.9897 | 99.9 | -0.002 | Contact Map |
| 4tp8F | 1 | 0.9897 | 99.9 | 0.005 | Contact Map |
| 5aj3F | 1 | 0 | 99.9 | 0.053 | Contact Map |
| 2kjwA | 1 | 0.5567 | 99.5 | 0.388 | Contact Map |
| 3zzpA | 1 | 0.4227 | 98.3 | 0.614 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)