| BMP10 |
| ID: | 1494628135 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 116 (109) | ||
| Sequences: | 1144 (729.2) | ||
| Seq/Len: | 10.495 | ||
| Nf(neff/√len): | 69.8 |
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: 10.495).
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 |
| 21_Y | 38_G | 7.112 | 1.00 |
| 17_K | 42_Y | 3.575 | 1.00 |
| 87_D | 111_S | 3.071 | 1.00 |
| 29_W | 32_W | 2.698 | 1.00 |
| 84_T | 114_G | 2.159 | 1.00 |
| 82_V | 116_R | 2.130 | 1.00 |
| 17_K | 110_V | 2.066 | 1.00 |
| 110_V | 113_C | 2.051 | 1.00 |
| 19_P | 40_E | 2.014 | 1.00 |
| 85_K | 112_E | 1.818 | 1.00 |
| 39_Y | 108_M | 1.716 | 1.00 |
| 25_K | 37_P | 1.711 | 1.00 |
| 57_T | 63_I | 1.691 | 1.00 |
| 85_K | 111_S | 1.623 | 1.00 |
| 92_L | 101_Y | 1.508 | 1.00 |
| 84_T | 112_E | 1.508 | 1.00 |
| 61_H | 65_Q | 1.497 | 1.00 |
| 110_V | 115_C | 1.462 | 1.00 |
| 22_I | 41_A | 1.432 | 1.00 |
| 95_D | 98_V | 1.365 | 0.99 |
| 62_A | 65_Q | 1.345 | 0.99 |
| 18_T | 45_R | 1.320 | 0.99 |
| 65_Q | 77_S | 1.317 | 0.99 |
| 108_M | 113_C | 1.286 | 0.99 |
| 21_Y | 40_E | 1.259 | 0.99 |
| 49_N | 56_L | 1.246 | 0.98 |
| 52_L | 62_A | 1.231 | 0.98 |
| 69_H | 89_I | 1.210 | 0.98 |
| 23_D | 38_G | 1.184 | 0.98 |
| 20_L | 42_Y | 1.172 | 0.98 |
| 47_V | 78_K | 1.165 | 0.97 |
| 86_L | 92_L | 1.144 | 0.97 |
| 20_L | 24_F | 1.099 | 0.96 |
| 90_S | 104_K | 1.096 | 0.96 |
| 14_Y | 85_K | 1.085 | 0.96 |
| 41_A | 108_M | 1.054 | 0.95 |
| 15_C | 24_F | 1.052 | 0.95 |
| 22_I | 54_E | 1.047 | 0.94 |
| 44_C | 48_C | 1.031 | 0.94 |
| 18_T | 43_E | 1.016 | 0.93 |
| 89_I | 109_A | 1.016 | 0.93 |
| 102_K | 105_Y | 1.016 | 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 | |
| 4n1dA | 1 | 0.8966 | 100 | 0.017 | Contact Map |
| 2h62A | 2 | 0.8879 | 100 | 0.017 | Contact Map |
| 2r52A | 2 | 0.8966 | 100 | 0.026 | Contact Map |
| 1lxiA | 1 | 0.8879 | 100 | 0.027 | Contact Map |
| 3evsB | 1 | 0.8879 | 100 | 0.032 | Contact Map |
| 3rjrA | 4 | 0.8966 | 100 | 0.035 | Contact Map |
| 2qcqA | 2 | 0.9138 | 100 | 0.049 | Contact Map |
| 4mplA | 1 | 0.9138 | 100 | 0.051 | Contact Map |
| 2arpA | 1 | 0.8793 | 100 | 0.077 | Contact Map |
| 2tgiA | 1 | 0.931 | 100 | 0.095 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)