6CO8

Structure of Zika virus at a resolution of 3.1 Angstrom


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.1 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Refinement and Analysis of the Mature Zika Virus Cryo-EM Structure at 3.1 angstrom Resolution.

Sevvana, M.Long, F.Miller, A.S.Klose, T.Buda, G.Sun, L.Kuhn, R.J.Rossmann, M.G.

(2018) Structure 26: 1169

  • DOI: 10.1016/j.str.2018.05.006

  • PubMed Abstract: 
  • Among the several arthropod-borne human flaviviral diseases, the recent outbreak of Zika virus (ZIKV) has caused devastating birth defects and neurological disorders, challenging the world with another major public health concern. We report here the ...

    Among the several arthropod-borne human flaviviral diseases, the recent outbreak of Zika virus (ZIKV) has caused devastating birth defects and neurological disorders, challenging the world with another major public health concern. We report here the refined structure of the mature ZIKV at a resolution of 3.1 Å as determined by cryo-electron microscopic single-particle reconstruction. The improvement in the resolution, compared with previous enveloped virus structures, was the result of optimized virus preparation methods and data processing techniques. The glycoprotein interactions and surface properties of ZIKV were compared with other mosquito-borne flavivirus structures. The largest structural differences and sequence variations occur at the glycosylation loop associated with receptor binding. Probable drug binding pockets were identified on the viral surface. These results also provide a structural basis for the design of vaccines against ZIKV.


    Related Citations: 
    • The 3.8 A resolution cryo-EM structure of Zika virus.
      Sirohi, D.,Chen, Z.,Sun, L.,Klose, T.,Pierson, T.C.,Rossmann, M.G.,Kuhn, R.J.
      (2016) Science 352: 467


    Organizational Affiliation

    Department of Biological Sciences, Purdue University, West Lafayette, IN 47907, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
E protein
A, C, E
504Zika virusMutation(s): 0 
Find proteins for A0A024B7W1 (Zika virus)
Go to UniProtKB:  A0A024B7W1
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
M protein
B, D, F
75Zika virusMutation(s): 0 
Find proteins for A0A024B7W1 (Zika virus)
Go to UniProtKB:  A0A024B7W1
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, C, E
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.1 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Center for Research ResourcesUnited StatesAI076331
National Institutes of Health/National Human Genome Research InstituteUnited StatesAI073755

Revision History 

  • Version 1.0: 2018-07-04
    Type: Initial release
  • Version 1.1: 2018-07-11
    Type: Data collection, Database references, Source and taxonomy
  • Version 1.2: 2018-09-19
    Type: Data collection, Database references