2D7S image
Entry Detail
PDB ID:
2D7S
Keywords:
Title:
Foot and Mouth Disease Virus RNA-dependent RNA polymerase in complex with VPg protein
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2005-11-29
Release Date:
2006-03-28
Method Details:
Experimental Method:
Resolution:
3.00 Å
R-Value Free:
0.29
R-Value Work:
0.27
R-Value Observed:
0.27
Space Group:
P 32 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:RNA-dependent RNA polymerase
Chain IDs:A
Chain Length:474
Number of Molecules:1
Biological Source:Foot-and-mouth disease virus
Polymer Type:polypeptide(L)
Description:VPg1 protein
Chain IDs:B
Chain Length:23
Number of Molecules:1
Biological Source:
Ligand Molecules
Primary Citation
The structure of a protein primer-polymerase complex in the initiation of genome replication
Embo J. 25 880 888 (2006)
PMID: 16456546 DOI: 10.1038/sj.emboj.7600971

Abstact

Picornavirus RNA replication is initiated by the covalent attachment of a UMP molecule to the hydroxyl group of a tyrosine in the terminal protein VPg. This reaction is carried out by the viral RNA-dependent RNA polymerase (3D). Here, we report the X-ray structure of two complexes between foot-and-mouth disease virus 3D, VPg1, the substrate UTP and divalent cations, in the absence and in the presence of an oligoadenylate of 10 residues. In both complexes, VPg fits the RNA binding cleft of the polymerase and projects the key residue Tyr3 into the active site of 3D. This is achieved by multiple interactions with residues of motif F and helix alpha8 of the fingers domain and helix alpha13 of the thumb domain of the polymerase. The complex obtained in the presence of the oligoadenylate showed the product of the VPg uridylylation (VPg-UMP). Two metal ions and the catalytic aspartic acids of the polymerase active site, together with the basic residues of motif F, have been identified as participating in the priming reaction.

Legend

Protein

Chemical

Disease

Primary Citation of related structures