6JJA

Cryo-EM structure of giant freshwater prawn Macrobrachium rosenbergii extra small virus (XSV) VLP

• PDB DOI:  https://doi.org/10.2210/pdb6JJA/pdb
• EM Map EMD-9705: EMDB EMDataResource

• Classification: VIRUS
• Organism(s): Extra small virus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-02-25 Released: 2019-07-17 
• Deposition Author(s): Chang, W.H., Wang, C.H., Lin, H.H., Lin, S.Y., Chong, S.C., Wu, Y.Y.
• Funding Organization(s): Ministry of Science and Technology (Taiwan)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.91 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of giant freshwater prawn Macrobrachium rosenbergii extra small virus (XSV) VLP

Chang, W.H., Wang, C.H., Lin, H.H., Lin, S.Y., Chong, S.C., Wu, Y.Y.

To be published.

Biological Assembly 1  

Global Symmetry: Icosahedral - I  (3D View)
Global Stoichiometry: Homo 60-mer - A60 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: microscopy

Macromolecule Content

• Total Structure Weight: 19.22 kDa 
• Atom Count: 1,175 
• Modelled Residue Count: 154 
• Deposited Residue Count: 174 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nucleocapsid protein CP17	A	174	Extra small virus	Mutation(s): 0
UniProt
Find proteins for Q15BP7 (Extra small virus) Explore Q15BP7  Go to UniProtKB:  Q15BP7

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	B [auth A], C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.91 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION	2.0
MODEL REFINEMENT	PHENIX	3374

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2019-07-17 
Deposition Author(s): Chang, W.H., Wang, C.H., Lin, H.H., Lin, S.Y., Chong, S.C., Wu, Y.Y.

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Funding Organization	Location	Grant Number
Ministry of Science and Technology (Taiwan)	Taiwan	MOST 103-2321-B-001-048
Ministry of Science and Technology (Taiwan)	Taiwan	MOST 104-2321-B-001-019
Ministry of Science and Technology (Taiwan)	Taiwan	MOST 105-2321-B-001-009
Ministry of Science and Technology (Taiwan)	Taiwan	MOST 106-0210-01-15-02
Ministry of Science and Technology (Taiwan)	Taiwan	MOST 106-0210-01-15-04
Ministry of Science and Technology (Taiwan)	Taiwan	MOST 107-0210-01-19-01
Ministry of Science and Technology (Taiwan)	Taiwan	MOST 107-0210-01-19-02

Revision History  

• Version 1.0: 2019-07-17
  Type: Initial release