6FRI | pdb_00006fri

Structure of LuxB from Photobacterium leiognathi

• PDB DOI: https://doi.org/10.2210/pdb6FRI/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Photobacterium leiognathi
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-02-15 Released: 2018-02-28 
• Deposition Author(s): Uhl, M., Gruber, K.
• Funding Organization(s): Austrian Science Fund

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.271 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.221 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.223 (Depositor) 

Starting Model: experimental

Literature

Structure of LuxB from Photobacterium leiognathi

Uhl, M., Gruber, K.

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)

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 149.64 kDa 
• Atom Count: 10,952 
• Modeled Residue Count: 1,290 
• Deposited Residue Count: 1,300 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alkanal monooxygenase beta chain	A, B, C, D	325	Photobacterium leiognathi	Mutation(s): 0  Gene Names: luxB EC: 1.14.14.3
UniProt
Find proteins for P09141 (Photobacterium leiognathi) Explore P09141  Go to UniProtKB:  P09141

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	E [auth B]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.271 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.221 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.324	α = 93.38
b = 52.487	β = 90.12
c = 157.662	γ = 114.14

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2018-02-28 
Deposition Author(s): Uhl, M., Gruber, K.

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Funding Organization	Location	Grant Number
Austrian Science Fund	Austria	--

Revision History  

• Version 1.0: 2018-02-28
  Type: Initial release
  
• Version 1.1: 2018-04-04
  Changes: Author supporting evidence, Data collection
• Version 1.2: 2024-01-17
  Changes: Data collection, Database references, Refinement description