PDBsum entry 5w3e

Virus/immune system

PDB id: 5w3e

Contents

Protein chains

116 a.a.

107 a.a.

274 a.a.

236 a.a.

255 a.a.

40 a.a.

Waters ×216

PDB id:

5w3e

Name:

Virus/immune system

Title:

Cryoem structure of rhinovirus b14 in complex with c5 fab (33 degrees celsius, molar ratio 1:3, full particle)

Structure:

C5 antibody variable heavy domain. Chain: e. C5 antibody variable light domain. Chain: g. Viral protein 1. Chain: a. Fragment: unp residues 568-856. Viral protein 3. Chain: b.

Source:

Mus musculus. Mouse. Organism_taxid: 10090. Human rhinovirus 14. Hrv-14, human rhinovirus b14. Organism_taxid: 12131. Organism_taxid: 12131

Authors:

Y.Liu,Y.Dong,M.G.Rossmann

Key ref:

Y.Dong et al. (2017). Antibody-induced uncoating of human rhinovirus B14. Proc Natl Acad Sci U S A, 114, 8017-8022. PubMed id: 28696310

Date:

07-Jun-17 Release date: 12-Jul-17

Protein chain

No UniProt id for this chain

Struc: 116 a.a.

Protein chain

No UniProt id for this chain

Struc: 107 a.a.

Protein chain

P03303  (POLG_HRV14) -  Genome polyprotein from Human rhinovirus 14

Seq: 2179 a.a.

Struc: 274 a.a.

Protein chain

P03303  (POLG_HRV14) -  Genome polyprotein from Human rhinovirus 14

Seq: 2179 a.a.

Struc: 236 a.a.

Protein chain

P03303  (POLG_HRV14) -  Genome polyprotein from Human rhinovirus 14

Seq: 2179 a.a.

Struc: 255 a.a.

Protein chain

P03303  (POLG_HRV14) -  Genome polyprotein from Human rhinovirus 14

Seq: 2179 a.a.

Struc: 40 a.a.

Enzyme reactions

• Enzyme class 2: Chains A, B, C, D: E.C.2.7.7.48 - RNA-directed Rna polymerase.
• Reaction: RNA(n) + a ribonucleoside 5'-triphosphate = RNA(n+1) + diphosphate
• Enzyme class 3: Chains A, B, C, D: E.C.3.4.22.28 - picornain 3C.
• Reaction: Selective cleavage of Gln-|-Gly bond in the poliovirus polyprotein. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly.
• Enzyme class 4: Chains A, B, C, D: E.C.3.4.22.29 - picornain 2A.
• Reaction: Selective cleavage of Tyr-|-Gly bond in the picornavirus polyprotein. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly.
• Enzyme class 5: Chains A, B, C, D: E.C.3.6.1.15 - nucleoside-triphosphate phosphatase.
• Reaction: a ribonucleoside 5'-triphosphate + H2O = a ribonucleoside 5'-diphosphate + phosphate + H⁺

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

reference

Proc Natl Acad Sci U S A 114:8017-8022 (2017)

PubMed id: 28696310

Antibody-induced uncoating of human rhinovirus B14.

Y.Dong, Y.Liu, W.Jiang, T.J.Smith, Z.Xu, M.G.Rossmann.

ABSTRACT

Rhinoviruses (RVs) are the major causes of common colds in humans. They have a nonenveloped, icosahedral capsid surrounding a positive-strand RNA genome. Here we report that the antigen-binding (Fab) fragment of a neutralizing antibody (C5) can trigger genome release from RV-B14 to form emptied particles and neutralize virus infection. Using cryo-electron microscopy, structures of the C5 Fab in complex with the full and emptied particles have been determined at 2.3 Å and 3.0 Å resolution, respectively. Each of the 60 Fab molecules binds primarily to a region on viral protein 3 (VP3). Binding of the C5 Fabs to RV-B14 results in significant conformational changes around holes in the capsid through which the viral RNA might exit. These results are so far the highest resolution view of an antibody-virus complex and elucidate a mechanism whereby antibodies neutralize RVs and related viruses by inducing virus uncoating.