| PCBP1_HUMAN |
| ID: | 1430407686 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 62 (61) | ||
| Sequences: | 563 (362.2) | ||
| Seq/Len: | 9.230 | ||
| Nf(neff/√len): | 46.4 |
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: 9.230).
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 |
| 28_S | 61_L | 2.282 | 1.00 |
| 30_A | 48_I | 1.840 | 1.00 |
| 14_I | 21_I | 1.829 | 1.00 |
| 23_E | 27_M | 1.811 | 1.00 |
| 34_I | 46_V | 1.733 | 1.00 |
| 51_S | 54_S | 1.552 | 1.00 |
| 4_T | 43_G | 1.421 | 0.99 |
| 20_N | 23_E | 1.420 | 0.99 |
| 28_S | 58_A | 1.372 | 0.99 |
| 48_I | 51_S | 1.368 | 0.99 |
| 50_G | 58_A | 1.332 | 0.99 |
| 25_R | 33_K | 1.332 | 0.99 |
| 2_E | 45_Q | 1.318 | 0.99 |
| 35_A | 54_S | 1.295 | 0.99 |
| 16_R | 21_I | 1.288 | 0.99 |
| 11_G | 18_G | 1.277 | 0.99 |
| 20_N | 25_R | 1.270 | 0.98 |
| 9_L | 12_C | 1.216 | 0.98 |
| 38_V | 41_S | 1.202 | 0.98 |
| 16_R | 44_R | 1.176 | 0.97 |
| 25_R | 31_Q | 1.169 | 0.97 |
| 10_I | 44_R | 1.150 | 0.97 |
| 4_T | 45_Q | 1.127 | 0.96 |
| 39_E | 59_Q | 1.125 | 0.96 |
| 35_A | 47_T | 1.123 | 0.96 |
| 17_Q | 33_K | 1.123 | 0.96 |
| 21_I | 32_I | 1.098 | 0.95 |
| 15_G | 21_I | 1.073 | 0.94 |
| 11_G | 21_I | 1.040 | 0.93 |
| 31_Q | 53_A | 1.029 | 0.93 |
| 53_A | 57_L | 1.018 | 0.92 |
| 14_I | 18_G | 1.011 | 0.92 |
| 5_I | 13_I | 1.003 | 0.91 |
| 30_A | 54_S | 1.000 | 0.91 |
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 | |
| 1j5kA | 1 | 1 | 99.4 | 0.188 | Contact Map |
| 1wvnA | 1 | 1 | 99.4 | 0.194 | Contact Map |
| 1zzkA | 1 | 1 | 99.3 | 0.197 | Contact Map |
| 2hh3A | 1 | 1 | 99.3 | 0.198 | Contact Map |
| 4lijA | 3 | 1 | 99.3 | 0.199 | Contact Map |
| 2p2rA | 1 | 1 | 99.3 | 0.199 | Contact Map |
| 1x4nA | 1 | 1 | 99.3 | 0.202 | Contact Map |
| 1ec6A | 2 | 1 | 99.3 | 0.221 | Contact Map |
| 2opvA | 1 | 1 | 99.3 | 0.223 | Contact Map |
| 2hh2A | 1 | 1 | 99.3 | 0.224 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)