8FJL

Golden Shiner Reovirus Core Tropical Vertex

• PDB DOI: https://doi.org/10.2210/pdb8FJL/pdb
• NAKB: 8FJL
• EM Map EMD-29244: EMDB EMDataResource

• Classification: VIRUS
• Organism(s): Golden shiner reovirus
• Mutation(s): No 


• Deposited: 2022-12-19 Released: 2023-03-08 
• Deposition Author(s): Stevens, A.S., Zhou, Z.H.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Science Foundation (NSF, United States), National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/Office of the Director

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.27 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Asymmetric reconstruction of the aquareovirus core at near-atomic resolution and mechanism of transcription initiation.

Stevens, A., Cui, Y., Shivakoti, S., Zhou, Z.H.

(2023) Protein Cell 14: 544-548

• PubMed: 36856784 
• DOI: https://doi.org/10.1093/procel/pwad002
• Primary Citation of Related Structures:  
  8FJK, 8FJL

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Organizational Affiliation: 

Department of Microbiology, Immunology and Molecular Genetics, University of California, Los Angeles (UCLA ), 609 Charles E Young Dr E, Los Angeles, CA 90095, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 32-mer - A10B10C5D4E1F1G1 

Local Symmetry: Cyclic - C5  (Explore in 3D)
Local Stoichiometry: Hetero 20-mer - A10B10 Local Symmetry: Cyclic - C5  (Explore in 3D)
Local Stoichiometry: Hetero 10-mer - A5C5 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 2,802.4 kDa 
• Atom Count: 193,071 
• Modelled Residue Count: 24,352 
• Deposited Residue Count: 24,872 
• Unique protein chains: 6
• Unique nucleic acid chains: 5

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA-directed RNA polymerase VP2	A	1,273	Golden shiner reovirus	Mutation(s): 0  EC: 2.7.7.48
UniProt
Find proteins for Q8JU61 (Aquareovirus C (isolate Golden shiner/USA/GSRV/1977)) Explore Q8JU61  Go to UniProtKB:  Q8JU61

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Microtubule-associated protein VP5	B	718	Golden shiner reovirus	Mutation(s): 0
UniProt
Find proteins for Q8JU58 (Aquareovirus C (isolate Golden shiner/USA/GSRV/1977)) Explore Q8JU58  Go to UniProtKB:  Q8JU58

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Major inner capsid protein VP3	C, D, E, F, G, H, I, J, K, L	1,138	Golden shiner reovirus	Mutation(s): 0  EC: 3.6.4.13
UniProt
Find proteins for Q8JU60 (Aquareovirus C (isolate Golden shiner/USA/GSRV/1977)) Explore Q8JU60  Go to UniProtKB:  Q8JU60

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Major inner capsid protein VP3	KA [auth k], LA [auth l], M, MA [auth m], N	94	Golden shiner reovirus	Mutation(s): 0  EC: 3.6.4.13
UniProt
Find proteins for Q8JU60 (Aquareovirus C (isolate Golden shiner/USA/GSRV/1977)) Explore Q8JU60  Go to UniProtKB:  Q8JU60

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Clamp protein VP6	AA [auth a], BA [auth b], DA [auth d], EA [auth e], GA [auth g], HA [auth h], NA [auth n], V, W, X	411	Golden shiner reovirus	Mutation(s): 0
UniProt
Find proteins for Q8JU54 (Aquareovirus C (isolate Golden shiner/USA/GSRV/1977)) Explore Q8JU54  Go to UniProtKB:  Q8JU54

Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
Outer capsid protein VP1	CA [auth c], FA [auth f], IA [auth i], Y, Z	1,297	Golden shiner reovirus	Mutation(s): 0  EC: 2.7.7.50 (PDB Primary Data), 2.1.1.56 (PDB Primary Data)
UniProt
Find proteins for Q8JU62 (Aquareovirus C (isolate Golden shiner/USA/GSRV/1977)) Explore Q8JU62  Go to UniProtKB:  Q8JU62

Entity ID: 5
Molecule	Chains	Length	Organism	Image
RNA (38-MER)	O [auth a5], P [auth b5]	28	Golden shiner reovirus

Entity ID: 6
Molecule	Chains	Length	Organism	Image
RNA (30-MER)	Q [auth b6], R [auth a6]	38	Golden shiner reovirus

Entity ID: 7
Molecule	Chains	Length	Organism	Image
RNA (52-MER)	S [auth a1], T [auth b1]	52	Golden shiner reovirus

Entity ID: 8
Molecule	Chains	Length	Organism	Image
RNA (39-MER)	JA [auth b3], U [auth a3]	40	Golden shiner reovirus

Entity ID: 11
Molecule	Chains	Length	Organism	Image
RNA (60-MER)	OA [auth a2], PA [auth b2]	60	Golden shiner reovirus

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	QA [auth E], RA [auth G], SA [auth I], TA [auth K]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.27 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-08 
Deposition Author(s): Stevens, A.S., Zhou, Z.H.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	U24GM116792
National Science Foundation (NSF, United States)	United States	DBI-1338135
National Science Foundation (NSF, United States)	United States	DMR-1548924
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI007323
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	U24GM116792
National Institutes of Health/Office of the Director	United States	1S10OD018111

Revision History  

• Version 1.0: 2023-03-08
  Type: Initial release
  
• Version 1.1: 2023-03-22
  Changes: Database references
• Version 1.2: 2023-07-12
  Changes: Database references
• Version 1.3: 2024-06-19
  Changes: Data collection