4Y4Y image
Deposition Date 2015-02-11
Release Date 2016-01-20
Last Version Date 2024-10-23
Entry Detail
PDB ID:
4Y4Y
Keywords:
Title:
T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (C2 crystal form)
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.00 Å
R-Value Free:
0.19
R-Value Work:
0.17
R-Value Observed:
0.18
Space Group:
C 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Immunoglobulin G-binding protein A,Coat protein
Gene (Uniprot):spa
Chain IDs:A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, W, X, Y, Z, AA (auth: a), BA (auth: b), CA (auth: c), DA (auth: d)
Chain Length:282
Number of Molecules:30
Biological Source:Staphylococcus aureus, Sesbania mosaic virus
Ligand Molecules
Primary Citation
Structural studies on chimeric Sesbania mosaic virus coat protein: Revisiting SeMV assembly.
Virology 489 34 43 (2015)
PMID: 26704627 DOI: 10.1016/j.virol.2015.11.029

Abstact

The capsid protein (CP) of Sesbania mosaic virus (SeMV, a T=3 plant virus) consists of a disordered N-terminal R-domain and an ordered S-domain. Removal of the R-domain results in the formation of T=1 particles. In the current study, the R-domain was replaced with unrelated polypeptides of similar lengths: the B-domain of Staphylococcus aureus SpA, and SeMV encoded polypeptides P8 and P10. The chimeric proteins contained T=3 or larger virus-like particles (VLPs) and could not be crystallized. The presence of metal ions during purification resulted in a large number of heterogeneous nucleoprotein complexes. N∆65-B (R domain replaced with B domain) could also be purified in a dimeric form. Its crystal structure revealed T=1 particles devoid of metal ions and the B-domain was disordered. However, the B-domain was functional in N∆65-B VLPs, suggesting possible biotechnological applications. These studies illustrate the importance of N-terminal residues, metal ions and robustness of the assembly process.

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Primary Citation of related structures