Genome polyprotein is a 166-residue protein from Echovirus E18. This is its AlphaFold structure prediction, created 3 Jul 2025. UniProt accession: Q8V635.
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The mean pLDDT of this model is 95.5 (very high overall). pLDDT is AlphaFold's per-residue confidence score from 0 to 100. In MolViewer, choose the B-factor color scheme to color the model by pLDDT, because AlphaFold stores it in the B-factor column.
| pLDDT band | Meaning | Share of residues |
|---|---|---|
| Above 90 | Very high: backbone and side chains are usually accurate | 92% |
| 70 to 90 | Confident: backbone generally right | 7% |
| 50 to 70 | Low: treat with caution | 1% |
| Below 50 | Very low: often disordered regions | 0% |
What pLDDT means and how to read it
Acts as a primer for viral RNA replication and remains covalently bound to viral genomic RNA. VPg is uridylylated prior to priming replication into VPg-pUpU. The oriI viral genomic sequence may act as a template for this. The VPg-pUpU is then used as primer on the genomic RNA poly(A) by the RNA-dependent RNA polymerase to replicate the viral genome. During genome replication, the VPg-RNA linkage is removed by the host TDP2, thereby accelerating replication. During the late stage of the replication cycle, host TDP2 is excluded from sites of viral RNA synthesis and encapsidation, allowing for the generation of progeny virions
Capsid protein VP1: Interacts with capsid protein VP0, and capsid protein VP3 to form heterotrimeric protomers. Five protomers subsequently associate to form pentamers which serve as building blocks for the capsid. Interacts with capsid protein VP2, capsid protein VP3 and capsid protein VP4 following cleavage of capsid protein VP0
Host cytoplasmic vesicle membrane, Host nucleus, Virion
Compare the prediction with experimentally determined structures of the same protein:
| PDB ID | Method | Resolution | Chains and residues |
|---|---|---|---|
| 7B5F | EM | 2.9 Å | A=569-855, B=70-329, C=330-568, D=1-69 |
| 6HBG | EM | 3.16 Å | A=569-855, B=70-329, C=330-568, D=1-69 |
| 6HBJ | EM | 3.16 Å | A=569-855, B=70-329, C=330-568 |
| 6HBH | EM | 3.36 Å | A=569-855, B=70-329, C=330-568 |
| 6HBL | EM | 3.7 Å | A/D/G/J/M/P/S/V/Y/b/e/h/k/n/q=569-855, B/E/H/K/N/Q/T/W/Z/c/f/i/l/o/r=70-329, C/F/I/L/O/R/U/X/a/d/g/j/m/p/s=330-568 |
| 6HBK | EM | 3.8 Å | A/D/G/J/M/P/S/V/Y/b/e=569-855, B/E/H/K/N/Q/T/W/Z/c/f=70-328, C/F/I/L/O/R/U/X/a/d/g=330-568 |
| 6HHT | EM | 4.05 Å | A1/A2/D1/D2/G1/G2/J1/J2/M1/M2/P1/P2/S1/S2/V1/V2/Y2/b2/e2/h2/k2/n2/q2/t2/w2=569-855, B1/B2/E1/E2/H1/H2/K1/K2/N1/N2/Q1/Q2/T1/T2/W1/W2/Z2/c2/f2/i2/l2/o2/r2/u2/x2=70-329 |
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