| SPTB2_HUMAN |
| ID: | 1430407927 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 102 (102) | ||
| Sequences: | 801 (495.6) | ||
| Seq/Len: | 7.853 | ||
| Nf(neff/√len): | 49.1 |
HHblits Results: (2013_03)
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: 7.853).
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 |
| 34_N | 61_N | 3.102 | 1.00 |
| 54_N | 57_Y | 2.651 | 1.00 |
| 64_N | 68_Q | 2.236 | 1.00 |
| 60_Q | 64_N | 2.122 | 1.00 |
| 20_I | 32_A | 2.109 | 1.00 |
| 22_N | 25_T | 1.884 | 1.00 |
| 88_E | 96_V | 1.809 | 1.00 |
| 72_L | 98_Y | 1.674 | 1.00 |
| 41_R | 44_L | 1.616 | 1.00 |
| 11_K | 39_K | 1.570 | 1.00 |
| 11_K | 40_H | 1.559 | 1.00 |
| 45_I | 61_N | 1.487 | 0.99 |
| 15_Y | 38_H | 1.472 | 0.99 |
| 33_F | 59_L | 1.465 | 0.99 |
| 60_Q | 74_K | 1.455 | 0.99 |
| 35_A | 47_F | 1.439 | 0.99 |
| 8_C | 20_I | 1.421 | 0.99 |
| 58_N | 62_A | 1.406 | 0.99 |
| 55_A | 82_S | 1.389 | 0.99 |
| 27_W | 30_G | 1.347 | 0.99 |
| 11_K | 36_L | 1.334 | 0.99 |
| 46_D | 49_K | 1.286 | 0.98 |
| 33_F | 63_F | 1.281 | 0.98 |
| 12_T | 31_M | 1.261 | 0.98 |
| 56_H | 60_Q | 1.239 | 0.97 |
| 81_I | 91_I | 1.238 | 0.97 |
| 65_L | 69_H | 1.233 | 0.97 |
| 12_T | 27_W | 1.223 | 0.97 |
| 66_A | 98_Y | 1.217 | 0.97 |
| 86_P | 95_V | 1.215 | 0.97 |
| 81_I | 94_Y | 1.187 | 0.96 |
| 64_N | 74_K | 1.176 | 0.96 |
| 27_W | 32_A | 1.172 | 0.96 |
| 51_K | 54_N | 1.147 | 0.95 |
| 18_V | 26_S | 1.146 | 0.95 |
| 90_S | 96_V | 1.145 | 0.95 |
| 56_H | 78_P | 1.144 | 0.95 |
| 40_H | 98_Y | 1.144 | 0.95 |
| 38_H | 43_D | 1.131 | 0.95 |
| 91_I | 95_V | 1.129 | 0.95 |
| 66_A | 76_L | 1.127 | 0.95 |
| 47_F | 50_L | 1.125 | 0.95 |
| 5_L | 9_Q | 1.114 | 0.94 |
| 33_F | 77_D | 1.105 | 0.94 |
| 50_L | 58_N | 1.090 | 0.93 |
| 60_Q | 78_P | 1.089 | 0.93 |
| 37_I | 41_R | 1.052 | 0.92 |
| 34_N | 50_L | 1.046 | 0.91 |
| 53_S | 57_Y | 1.042 | 0.91 |
| 38_H | 63_F | 1.036 | 0.91 |
| 87_D | 94_Y | 1.027 | 0.90 |
| 87_D | 91_I | 1.018 | 0.90 |
| 22_N | 26_S | 1.014 | 0.90 |
| 3_A | 76_L | 1.006 | 0.89 |
| 44_L | 90_S | 1.001 | 0.89 |
| 31_M | 35_A | 1.001 | 0.89 |
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 | |
| 1bhdA | 2 | 1 | 100 | 0.054 | Contact Map |
| 1wyqA | 1 | 1 | 100 | 0.061 | Contact Map |
| 1bkrA | 1 | 1 | 100 | 0.062 | Contact Map |
| 2d87A | 1 | 1 | 100 | 0.084 | Contact Map |
| 2d88A | 1 | 1 | 100 | 0.087 | Contact Map |
| 1wylA | 1 | 0.9902 | 100 | 0.095 | Contact Map |
| 2d89A | 1 | 0.9902 | 100 | 0.104 | Contact Map |
| 3f7pA | 2 | 1 | 100 | 0.118 | Contact Map |
| 4q57B | 1 | 0.9902 | 100 | 0.12 | Contact Map |
| 4d1eA | 1 | 0.9706 | 100 | 0.122 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)