8U41

OvsA from Halomonas utahensis, an ovoselenol-biosynthetic selenoxide synthase in complex with histidine

• PDB DOI: https://doi.org/10.2210/pdb8U41/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Vreelandella utahensis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-09-08 Released: 2024-07-17 
• Deposition Author(s): Ireland, K.A., Davis, K.M.
• Funding Organization(s): National Science Foundation (NSF, United States), National Institutes of Health/John E. Fogarty International Center (NIH/FIC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.72 Å
• R-Value Free: 0.246 
• R-Value Work: 0.225 
• R-Value Observed: 0.226 

Starting Model: in silico

Literature

Discovery of the selenium-containing antioxidant ovoselenol derived from convergent evolution

Kayrouz, C.M., Ireland, K.A., Ying, V.Y., Davis, K.M., Seyedsayamdost, M.R.

(2024) Nat Chem 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 110.05 kDa 
• Atom Count: 7,296 
• Modelled Residue Count: 900 
• Deposited Residue Count: 944 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Selenoxide synthase OvsA	A, B	472	Vreelandella utahensis	Mutation(s): 0  Gene Names: CK501_04640

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HIS (Subject of Investigation/LOI)	G [auth A], J [auth B]	HISTIDINE C6 H10 N3 O2 HNDVDQJCIGZPNO-YFKPBYRVSA-O
FE	C [auth A], H [auth B]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N
FMT	E [auth A], F [auth A]	FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N
NA	D [auth A], I [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.72 Å
• R-Value Free: 0.246 
• R-Value Work: 0.225 
• R-Value Observed: 0.226 
• Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 160.129	α = 90
b = 160.129	β = 90
c = 122.312	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
Coot	model building
MOSFLM	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-17 
Deposition Author(s): Ireland, K.A., Davis, K.M.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	1937971
National Institutes of Health/John E. Fogarty International Center (NIH/FIC)	United States	R35-GM147557

Revision History  

• Version 1.0: 2024-07-17
  Type: Initial release