9PQF | pdb_00009pqf

Xray crystal structure of Vientovirus FB Rep endonuclease domain 2-114 with Mg2+ ion

• PDB DOI: https://doi.org/10.2210/pdb9PQF/pdb

• Classification: REPLICATION
• Organism(s): Human lung-associated vientovirus FB
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2025-07-22 Released: 2026-02-25 
• Deposition Author(s): Montermoso, S., Gupta, K., Pumroy, R.A., Moiseenkova-Bell, V., Bushman, F.D., Van Duyne, G.D.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), Department of Health & Human Services (HHS), National Science Foundation (NSF, United States)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.218 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.180 (Depositor), 0.184 (DCC) 
• R-Value Observed: 
  0.184 (Depositor) 

Starting Model: in silico

Literature

Structures of nucleotide-bound Redondovirus Rep protein link conformation and function

Montermoso, S., Gupta, K., Pumroy, R.A., Moiseenkova-Bell, V., Bushman, F.D., Van Duyne, G.D.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 13.03 kDa 
• Atom Count: 961 
• Modeled Residue Count: 113 
• Deposited Residue Count: 113 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Replication-associated protein	A	113	Human lung-associated vientovirus FB	Mutation(s): 1
UniProt
Find proteins for A0A4D6K5Y8 (Human lung-associated vientovirus FB) Explore A0A4D6K5Y8  Go to UniProtKB:  A0A4D6K5Y8

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MLI	C [auth A]	MALONATE ION C3 H2 O4 OFOBLEOULBTSOW-UHFFFAOYSA-L
MG (Subject of Investigation/LOI)	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.218 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.180 (Depositor), 0.184 (DCC) 
• R-Value Observed: 0.184 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.944	α = 90
b = 62.974	β = 90
c = 64.705	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
DIALS	data scaling
DIALS	data reduction
PHASER	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2026-02-25 
Deposition Author(s): Montermoso, S., Gupta, K., Pumroy, R.A., Moiseenkova-Bell, V., Bushman, F.D., Van Duyne, G.D.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	P30AI045008
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM108751
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	T32AI007632
Department of Health & Human Services (HHS)	United States	S10OD018483
National Science Foundation (NSF, United States)	United States	DMR2342336
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	1P30GM124166

Revision History  

• Version 1.0: 2026-02-25
  Type: Initial release