7Y57 image
Deposition Date 2022-06-16
Release Date 2023-07-05
Last Version Date 2024-10-16
Entry Detail
PDB ID:
7Y57
Title:
Crystal structure of NS1 nuclease domain in P21 space group
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.18 Å
R-Value Free:
0.25
R-Value Work:
0.22
R-Value Observed:
0.22
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:NS1 protein
Chain IDs:A, B
Chain Length:177
Number of Molecules:2
Biological Source:Human parvovirus B19
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
MSE A MET modified residue
Ligand Molecules
Primary Citation
Structures and implications of the nuclease domain of human parvovirus B19 NS1 protein.
Comput Struct Biotechnol J 20 4645 4655 (2022)
PMID: 36090819 DOI: 10.1016/j.csbj.2022.08.047

Abstact

Infection of human parvovirus B19 (B19V) can cause a variety of diseases, such as hydrops fetalis, erythema infectiosum in children and acute arthropathy in women. Although B19V infection mainly occurs during childhood, about 50 % of adults are still susceptible to B19V infection. As the major replication protein of B19V, deletion of NS1 completely abolishes the infectivity of the virus. The nuclease domain of NS1 (NS1_Nuc) is responsible for DNA Ori binding and nicking that is critical for B19V viral DNA replication. NS1 has various variants, the structure and function for the majority of the variants are poorly studied. Here, we report two high-resolution crystal structures of NS1_Nuc, revealed the detailed conformations of many key residues. Structural comparison indicates that these residues are important for ssDNA or dsDNA binding by NS1. NS1 belongs to the HUH-endonuclease superfamily and it shares conserved ssDNA cleavage mechanism with other HUH-endonuclease members. However, our structural analyses, mutagenesis and in vitro assay results all suggested that NS1_Nuc utilizes one unique model in ssDNA binding.

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Primary Citation of related structures