| zbtb7c_gremlin |
| ID: | 1449077383 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 124 (117) | ||
| Sequences: | 9571 (6495.7) | ||
| Seq/Len: | 81.803 | ||
| Nf(neff/√len): | 600.5 |
HHblits Results: (2015_06)
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: 81.803).
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 |
| 31_L | 38_E | 2.977 | 1.00 |
| 34_V | 79_L | 2.886 | 1.00 |
| 82_I | 110_I | 2.662 | 1.00 |
| 33_V | 68_V | 2.454 | 1.00 |
| 39_Y | 76_P | 2.325 | 1.00 |
| 30_V | 41_T | 2.295 | 1.00 |
| 33_V | 38_E | 2.263 | 1.00 |
| 42_H | 87_Y | 2.103 | 1.00 |
| 51_K | 109_E | 2.046 | 1.00 |
| 106_R | 114_V | 2.010 | 1.00 |
| 38_E | 68_V | 1.995 | 1.00 |
| 74_V | 104_A | 1.860 | 1.00 |
| 37_Q | 76_P | 1.828 | 1.00 |
| 75_Q | 100_H | 1.803 | 1.00 |
| 33_V | 70_E | 1.799 | 1.00 |
| 31_L | 40_R | 1.743 | 1.00 |
| 49_C | 86_A | 1.678 | 1.00 |
| 37_Q | 80_A | 1.664 | 1.00 |
| 39_Y | 80_A | 1.652 | 1.00 |
| 26_L | 54_K | 1.636 | 1.00 |
| 82_I | 104_A | 1.611 | 1.00 |
| 74_V | 79_L | 1.547 | 1.00 |
| 73_F | 107_M | 1.540 | 1.00 |
| 32_L | 79_L | 1.534 | 1.00 |
| 86_A | 110_I | 1.462 | 1.00 |
| 32_L | 41_T | 1.460 | 1.00 |
| 19_N | 22_R | 1.458 | 1.00 |
| 25_G | 40_R | 1.435 | 1.00 |
| 75_Q | 78_A | 1.407 | 0.99 |
| 53_F | 57_F | 1.401 | 0.99 |
| 82_I | 113_I | 1.375 | 0.99 |
| 52_Y | 108_L | 1.375 | 0.99 |
| 102_L | 118_L | 1.329 | 0.99 |
| 21_Q | 44_S | 1.329 | 0.99 |
| 62_L | 66_P | 1.327 | 0.99 |
| 78_A | 100_H | 1.290 | 0.99 |
| 39_Y | 83_L | 1.286 | 0.99 |
| 54_K | 58_T | 1.270 | 0.99 |
| 80_A | 84_E | 1.266 | 0.99 |
| 78_A | 104_A | 1.258 | 0.99 |
| 35_Q | 76_P | 1.243 | 0.98 |
| 30_V | 57_F | 1.200 | 0.98 |
| 19_N | 23_H | 1.179 | 0.98 |
| 98_V | 120_I | 1.173 | 0.98 |
| 14_V | 18_L | 1.170 | 0.97 |
| 118_L | 122_E | 1.157 | 0.97 |
| 22_R | 84_E | 1.130 | 0.97 |
| 34_V | 39_Y | 1.123 | 0.97 |
| 31_L | 68_V | 1.123 | 0.97 |
| 43_R | 67_Y | 1.109 | 0.96 |
| 35_Q | 75_Q | 1.108 | 0.96 |
| 77_E | 97_N | 1.100 | 0.96 |
| 17_S | 20_E | 1.093 | 0.96 |
| 82_I | 108_L | 1.081 | 0.95 |
| 30_V | 46_L | 1.073 | 0.95 |
| 16_C | 20_E | 1.069 | 0.95 |
| 26_L | 58_T | 1.037 | 0.94 |
| 94_T | 97_N | 1.032 | 0.94 |
| 11_S | 15_L | 1.027 | 0.94 |
| 81_A | 84_E | 1.027 | 0.94 |
| 93_I | 120_I | 1.020 | 0.93 |
| 55_K | 109_E | 1.011 | 0.93 |
| 74_V | 107_M | 1.007 | 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 | |
| 3i3nA | 2 | 0.9919 | 99.9 | 0.108 | Contact Map |
| 4hxiA | 1 | 0.9274 | 99.9 | 0.11 | Contact Map |
| 2if5A | 1 | 0.9274 | 99.9 | 0.117 | Contact Map |
| 3hveA | 1 | 0.8629 | 99.9 | 0.121 | Contact Map |
| 2ppiA | 1 | 0.9355 | 99.9 | 0.123 | Contact Map |
| 4cxiA | 1 | 1 | 99.9 | 0.128 | Contact Map |
| 3ohuA | 6 | 0.9597 | 99.8 | 0.146 | Contact Map |
| 4u77A | 1 | 0.9597 | 99.8 | 0.146 | Contact Map |
| 1buoA | 1 | 0.9597 | 99.8 | 0.148 | Contact Map |
| 2z8hA | 1 | 0.9839 | 99.8 | 0.153 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)