6UEB | pdb_00006ueb

Structure of Rabies SAD-B19 L-P complex from cryo-EM

• PDB DOI: https://doi.org/10.2210/pdb6UEB/pdb
• EM Map EMD-20753: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Rabies virus SAD B19
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2019-09-20 Released: 2020-02-05 
• Deposition Author(s): Horwitz, J.A., Harrison, S.C.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structure of a rabies virus polymerase complex from electron cryo-microscopy.

Horwitz, J.A., Jenni, S., Harrison, S.C., Whelan, S.P.J.

(2020) Proc Natl Acad Sci U S A 117: 2099-2107

• PubMed: 31953264 
• DOI: https://doi.org/10.1073/pnas.1918809117
• Primary Citation Related Structures: 
  6UEB


• PubMed Abstract: 
  

  Nonsegmented negative-stranded (NNS) RNA viruses, among them the virus that causes rabies (RABV), include many deadly human pathogens. The large polymerase (L) proteins of NNS RNA viruses carry all of the enzymatic functions required for viral messenger RNA (mRNA) transcription and replication: RNA polymerization, mRNA capping, and cap methylation. We describe here a complete structure of RABV L bound with its phosphoprotein cofactor (P), determined by electron cryo-microscopy at 3.3 Å resolution. The complex closely resembles the vesicular stomatitis virus (VSV) L-P, the one other known full-length NNS-RNA L-protein structure, with key local differences (e.g., in L-P interactions). Like the VSV L-P structure, the RABV complex analyzed here represents a preinitiation conformation. Comparison with the likely elongation state, seen in two structures of pneumovirus L-P complexes, suggests differences between priming/initiation and elongation complexes. Analysis of internal cavities within RABV L suggests distinct template and product entry and exit pathways during transcription and replication.

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Organizational Affiliation: 
• Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115.
Department of Microbiology, Harvard Medical School, Boston, MA 02115.
Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115; [e-mail] [e-mail].
Howard Hughes Medical Institute, Harvard Medical School, Boston, MA 02115.
Department of Microbiology, Harvard Medical School, Boston, MA 02115; [e-mail] [e-mail].
Department of Molecular Microbiology, Washington University School of Medicine, St. Louis, MO 63110.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 248.03 kDa 
• Atom Count: 17,219 
• Modeled Residue Count: 2,141 
• Deposited Residue Count: 2,169 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Large structural protein	A	2,127	Rabies virus SAD B19	Mutation(s): 0  EC: 2.7.7.48 (PDB Primary Data), 2.1.1.56 (PDB Primary Data), 2.7.7.88 (PDB Primary Data), 2.1.1.296 (PDB Primary Data), 3.6.1 (UniProt)
UniProt
Find proteins for P16289 (Rabies virus (strain SAD B19)) Explore P16289  Go to UniProtKB:  P16289

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphoprotein,Phosphoprotein	B	42	Rabies virus SAD B19	Mutation(s): 0
UniProt
Find proteins for P16286 (Rabies virus (strain SAD B19)) Explore P16286  Go to UniProtKB:  P16286

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	C [auth A], D [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-02-05 
Deposition Author(s): Horwitz, J.A., Harrison, S.C.

Revision History  

• Version 1.0: 2020-02-05
  Type: Initial release
  
• Version 1.1: 2020-02-12
  Changes: Database references
• Version 1.2: 2024-03-20
  Changes: Data collection, Database references