| MPS1 N-term 55-200 |
| ID: | 1452521396 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 146 (137) | ||
| Sequences: | 252 (153.5) | ||
| Seq/Len: | 1.839 | ||
| Nf(neff/√len): | 13.1 |
Jackhmmer Results: (2015_08)
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: 1.839).
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 |
| 75_R | 99_E | 2.840 | 1.00 |
| 122_P | 126_L | 2.267 | 1.00 |
| 95_F | 111_L | 2.261 | 1.00 |
| 130_L | 134_N | 1.797 | 0.97 |
| 93_I | 129_A | 1.785 | 0.97 |
| 51_Q | 126_L | 1.704 | 0.96 |
| 128_I | 132_N | 1.704 | 0.96 |
| 89_A | 126_L | 1.679 | 0.95 |
| 87_K | 110_Q | 1.676 | 0.95 |
| 132_N | 135_L | 1.667 | 0.95 |
| 50_G | 57_R | 1.666 | 0.95 |
| 18_L | 32_K | 1.621 | 0.94 |
| 127_E | 130_L | 1.460 | 0.88 |
| 50_G | 53_E | 1.443 | 0.87 |
| 100_L | 115_A | 1.441 | 0.87 |
| 125_M | 130_L | 1.416 | 0.86 |
| 101_S | 109_K | 1.388 | 0.84 |
| 62_F | 65_L | 1.374 | 0.84 |
| 57_R | 60_V | 1.369 | 0.83 |
| 14_L | 17_K | 1.353 | 0.82 |
| 106_K | 114_K | 1.316 | 0.80 |
| 53_E | 57_R | 1.305 | 0.79 |
| 62_F | 67_A | 1.290 | 0.78 |
| 33_L | 71_P | 1.285 | 0.78 |
| 84_N | 113_Q | 1.246 | 0.74 |
| 54_S | 60_V | 1.245 | 0.74 |
| 76_D | 104_N | 1.242 | 0.74 |
| 39_Q | 73_D | 1.239 | 0.74 |
| 11_W | 58_I | 1.225 | 0.73 |
| 62_F | 105_V | 1.217 | 0.72 |
| 55_F | 58_I | 1.213 | 0.72 |
| 40_A | 95_F | 1.203 | 0.71 |
| 33_L | 129_A | 1.200 | 0.70 |
| 98_F | 102_Q | 1.189 | 0.69 |
| 100_L | 104_N | 1.174 | 0.68 |
| 15_L | 22_S | 1.153 | 0.66 |
| 53_E | 60_V | 1.140 | 0.65 |
| 16_L | 95_F | 1.138 | 0.64 |
| 100_L | 108_S | 1.132 | 0.64 |
| 78_F | 94_S | 1.120 | 0.63 |
| 34_I | 73_D | 1.119 | 0.63 |
| 37_Y | 42_E | 1.110 | 0.62 |
| 50_G | 60_V | 1.098 | 0.60 |
| 104_N | 124_E | 1.083 | 0.59 |
| 35_G | 92_H | 1.075 | 0.58 |
| 69_Q | 72_D | 1.074 | 0.58 |
| 14_L | 19_E | 1.072 | 0.58 |
| 128_I | 134_N | 1.066 | 0.57 |
| 116_V | 135_L | 1.065 | 0.57 |
| 107_K | 132_N | 1.064 | 0.57 |
| 125_M | 132_N | 1.062 | 0.57 |
| 53_E | 61_R | 1.062 | 0.57 |
| 48_K | 95_F | 1.058 | 0.56 |
| 131_R | 134_N | 1.056 | 0.56 |
| 50_G | 61_R | 1.044 | 0.55 |
| 64_E | 90_F | 1.037 | 0.54 |
| 97_Q | 102_Q | 1.032 | 0.53 |
| 58_I | 91_V | 1.031 | 0.53 |
| 11_W | 14_L | 1.030 | 0.53 |
| 33_L | 104_N | 1.030 | 0.53 |
| 127_E | 134_N | 1.028 | 0.53 |
| 95_F | 119_G | 1.024 | 0.52 |
| 57_R | 61_R | 1.022 | 0.52 |
| 11_W | 17_K | 1.020 | 0.52 |
| 117_E | 120_A | 1.013 | 0.51 |
| 103_G | 129_A | 1.007 | 0.51 |
| 52_N | 61_R | 1.006 | 0.50 |
| 71_P | 102_Q | 1.006 | 0.50 |
| 56_A | 60_V | 1.000 | 0.50 |
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 | |
| 4b94A | 4 | 0.9658 | 99.9 | 0.467 | Contact Map |
| 4h7yA | 4 | 0.9658 | 99.9 | 0.504 | Contact Map |
| 4aezC | 3 | 0.9589 | 99.9 | 0.505 | Contact Map |
| 4a1gA | 4 | 0.8973 | 99.6 | 0.651 | Contact Map |
| 2wviA | 1 | 0.9247 | 99.6 | 0.664 | Contact Map |
| 3eslA | 2 | 1 | 99.5 | 0.677 | Contact Map |
| 2ondA | 2 | 0.9521 | 99.4 | 0.703 | Contact Map |
| 2ooeA | 1 | 0.9521 | 99.2 | 0.728 | Contact Map |
| 2uy1A | 1 | 0.863 | 98.6 | 0.782 | Contact Map |
| 4e6hA | 1 | 0.9521 | 97.5 | 0.835 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)