1D4M

THE CRYSTAL STRUCTURE OF COXSACKIEVIRUS A9 TO 2.9 A RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Work: 0.169 
  • R-Value Observed: 0.169 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The crystal structure of coxsackievirus A9: new insights into the uncoating mechanisms of enteroviruses.

Hendry, E.Hatanaka, H.Fry, E.Smyth, M.Tate, J.Stanway, G.Santti, J.Maaronen, M.Hyypia, T.Stuart, D.

(1999) Structure 7: 1527-1538

  • DOI: 10.1016/s0969-2126(00)88343-4
  • Primary Citation of Related Structures:  
    1D4M

  • PubMed Abstract: 
  • Coxsackievirus A9 (CAV9), a human pathogen causing symptoms ranging from common colds to fatal infections of the central nervous system, is an icosahedral single-stranded RNA virus that belongs to the genus Enterovirus of the family Picornaviridae. One of the four capsid proteins, VP1, includes the arginine-glycine-aspartate (RGD) motif within its C-terminal extension ...

    Coxsackievirus A9 (CAV9), a human pathogen causing symptoms ranging from common colds to fatal infections of the central nervous system, is an icosahedral single-stranded RNA virus that belongs to the genus Enterovirus of the family Picornaviridae. One of the four capsid proteins, VP1, includes the arginine-glycine-aspartate (RGD) motif within its C-terminal extension. This region binds to integrin alpha v beta 3, the only receptor for CAV9 to be conclusively identified to date.


    Related Citations: 
    • Preliminary Crystallographic Analysis of Coxsackievirus A9
      Smyth, M., Hall, J., Fry, E., Stuart, D., Stanway, G., Hyypia, T.
      (1993) J Mol Biol 230: 667

    Organizational Affiliation

    Laboratory of Molecular Biophysics, Oxford, UK.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (COXSACKIEVIRUS A9)A [auth 1]299Coxsackievirus A9Mutation(s): 0 
EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
UniProt
Find proteins for P21404 (Coxsackievirus A9 (strain Griggs))
Explore P21404 
Go to UniProtKB:  P21404
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (COXSACKIEVIRUS A9)B [auth 2]261Coxsackievirus A9Mutation(s): 0 
EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
UniProt
Find proteins for P21404 (Coxsackievirus A9 (strain Griggs))
Explore P21404 
Go to UniProtKB:  P21404
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (COXSACKIEVIRUS A9)C [auth 3]238Coxsackievirus A9Mutation(s): 0 
EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
UniProt
Find proteins for P21404 (Coxsackievirus A9 (strain Griggs))
Explore P21404 
Go to UniProtKB:  P21404
Protein Feature View
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  • Reference Sequence
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (COXSACKIEVIRUS A9)D [auth 4]68Coxsackievirus A9Mutation(s): 0 
EC: 3.4.22.29 (UniProt), 3.6.1.15 (UniProt), 3.4.22.28 (UniProt), 2.7.7.48 (UniProt)
UniProt
Find proteins for P21404 (Coxsackievirus A9 (strain Griggs))
Explore P21404 
Go to UniProtKB:  P21404
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
W71
Query on W71

Download Ideal Coordinates CCD File 
E [auth 1], F [auth 1]5-(7-(4-(4,5-DIHYDRO-2-OXAZOLYL)PHENOXY)HEPTYL)-3-METHYL ISOXAZOLE
C20 H26 N2 O3
FKLJPTJMIBLJAV-UHFFFAOYSA-N
 Ligand Interaction
MYR
Query on MYR

Download Ideal Coordinates CCD File 
G [auth 4]MYRISTIC ACID
C14 H28 O2
TUNFSRHWOTWDNC-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Work: 0.169 
  • R-Value Observed: 0.169 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 487.3α = 90
b = 358.1β = 128.1
c = 305.7γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling
X-PLORphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1999-12-23
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance