5X29 | pdb_00005x29

NMR structure of the SARS Coronavirus E protein pentameric ion channel

• PDB DOI: https://doi.org/10.2210/pdb5X29/pdb
• BMRB: 36049

• Classification: VIRAL PROTEIN
• Organism(s): Severe acute respiratory syndrome-related coronavirus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 
• Membrane Protein: Yes  OPMPDBTM


• Deposited: 2017-01-31 Released: 2017-06-07 
• Deposition Author(s): Torres, J., Surya, W., Li, Y.
• Funding Organization(s): Ministry of Education

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 16 
• Selection Criteria: structures with the lowest energy 

Literature

Structural model of the SARS coronavirus E channel in LMPG micelles

Surya, W., Li, Y., Torres, J.

(2018) Biochim Biophys Acta 1860: 1309-1317

• PubMed: 29474890 
• DOI: https://doi.org/10.1016/j.bbamem.2018.02.017
• Primary Citation Related Structures: 
  5X29


• PubMed Abstract: 
  

  Coronaviruses (CoV) cause common colds in humans, but are also responsible for the recent Severe Acute, and Middle East, respiratory syndromes (SARS and MERS, respectively). A promising approach for prevention are live attenuated vaccines (LAVs), some of which target the envelope (E) protein, which is a small membrane protein that forms ion channels. Unfortunately, detailed structural information is still limited for SARS-CoV E, and non-existent for other CoV E proteins. Herein, we report a structural model of a SARS-CoV E construct in LMPG micelles with, for the first time, unequivocal intermolecular NOEs. The model corresponding to the detergent-embedded region is consistent with previously obtained orientational restraints obtained in lipid bilayers and in vivo escape mutants. The C-terminal domain is mostly α-helical, and extramembrane intermolecular NOEs suggest interactions that may affect the TM channel conformation.

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Organizational Affiliation: 
• School of Biological Sciences, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551, Singapore.
School of Biological Sciences, Nanyang Technological University, 60 Nanyang Drive, Singapore 637551, Singapore. Electronic address: [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C5  (Explore in 3D)
Global Stoichiometry: Homo 5-mer - A5 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 45.02 kDa 
• Atom Count: 2,235 
• Modeled Residue Count: 290 
• Deposited Residue Count: 405 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope small membrane protein	A, B, C, D, E	81	Severe acute respiratory syndrome-related coronavirus	Mutation(s): 3  Gene Names: E, sM, 4 Membrane Entity: Yes
UniProt
Find proteins for P59637 (Severe acute respiratory syndrome coronavirus) Explore P59637  Go to UniProtKB:  P59637

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 16 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2017-06-07 
Deposition Author(s): Torres, J., Surya, W., Li, Y.

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Funding Organization	Location	Grant Number
Ministry of Education	Singapore	RG 51/13

Revision History  

• Version 1.0: 2017-06-07
  Type: Initial release
  
• Version 2.0: 2018-07-04
  Changes: Data collection, Database references, Polymer sequence
• Version 2.1: 2023-06-14
  Changes: Data collection, Database references, Other
• Version 2.2: 2024-05-15
  Changes: Data collection, Database references