1UON | pdb_00001uon

REOVIRUS POLYMERASE LAMBDA-3 LOCALIZED BY ELECTRON CRYOMICROSCOPY OF VIRIONS AT 7.6-A RESOLUTION

• PDB DOI: https://doi.org/10.2210/pdb1UON/pdb
• NAKB: 1UON

• Classification: POLYMERASE
• Organism(s): Reovirus sp., synthetic construct
• Mutation(s): No 


• Deposited: 2003-09-21 Released: 2003-11-13 
• Deposition Author(s): Zhang, X., Walker, S.B., Chipman, P.R., Nibert, M.L., Baker, T.S.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 7.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Reovirus Polymerase Lambda3 Localized by Cryo-Electron Microscopy of Virions at a Resolution of 7.6 A

Zhang, X., Walker, S.B., Chipman, P.R., Nibert, M.L., Baker, T.S.

(2003) Nat Struct Biol 10: 1011

• PubMed: 14608373 
• DOI: https://doi.org/10.1038/nsb1009
• Primary Citation Related Structures: 
  1UON


• PubMed Abstract: 
  

  Reovirus is an icosahedral, double-stranded (ds) RNA virus that uses viral polymerases packaged within the viral core to transcribe its ten distinct plus-strand RNAs. To localize these polymerases, the structure of the reovirion was refined to a resolution of 7.6 A by cryo-electron microscopy (cryo-EM) and three-dimensional (3D) image reconstruction. X-ray crystal models of reovirus proteins, including polymerase lambda 3, were then fitted into the density map. Each copy of lambda 3 was found anchored to the inner surface of the icosahedral core shell, making major contacts with three molecules of shell protein lambda 1 and overlapping, but not centering on, a five-fold axis. The overlap explains why only one copy of lambda 3 is bound per vertex. lambda 3 is furthermore oriented with its transcript exit channel facing a small channel through the lambda 1 shell, suggesting how the nascent RNA is passed into the large external cavity of the pentameric capping enzyme complex formed by protein lambda 2.

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Organizational Affiliation: 
• Department of Biological Sciences, Purdue University, West Lafayette, Indiana 47907, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 generated by PQS (software)

Macromolecule Content 

• Total Structure Weight: 148.08 kDa 
• Atom Count: 10,703 
• Modeled Residue Count: 1,277 
• Deposited Residue Count: 1,280 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MINOR CORE PROTEIN LAMBDA 3	A	1,267	Reovirus sp.	Mutation(s): 0  EC: 2.7.7.48
UniProt
Find proteins for P0CK31 (Reovirus type 3 (strain Dearing)) Explore P0CK31  Go to UniProtKB:  P0CK31

Entity ID: 2
Molecule	Chains	Length	Organism	Image
5'-R(*GP*GP*GP*GP*GP*)-3'	B	5	synthetic construct

Entity ID: 3
Molecule	Chains	Length	Organism	Image
5'-R(*UP*AP*GP*CP*CP*CP*CP*CP*)-3'	C	8	synthetic construct

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CH1	D [auth A], E [auth A], F [auth A]	3'-DEOXY-CYTIDINE-5'-TRIPHOSPHATE C9 H16 N3 O13 P3 CHKFLBOLYREYDO-SHYZEUOFSA-N
MN	G [auth A], H [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 7.60 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	PFT

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-11-13 
Deposition Author(s): Zhang, X., Walker, S.B., Chipman, P.R., Nibert, M.L., Baker, T.S.

Revision History  

• Version 1.0: 2003-11-13
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 2.0: 2018-10-03
  Changes: Atomic model, Data collection, Derived calculations, Source and taxonomy
• Version 2.1: 2024-05-08
  Changes: Data collection, Database references, Derived calculations, Refinement description