5UWZ | pdb_00005uwz

Protein 12 with aldehyde deformylating oxygenase activity from Gloeobacter violaceus

• PDB DOI: https://doi.org/10.2210/pdb5UWZ/pdb

• Classification: LYASE
• Organism(s): Gloeobacter violaceus PCC 7421
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2017-02-21 Released: 2018-02-28 
• Deposition Author(s): Wilson, D.K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.25 Å
• R-Value Free: 
  0.167 (Depositor), 0.170 (DCC) 
• R-Value Work: 
  0.139 (Depositor), 0.150 (DCC) 
• R-Value Observed: 
  0.140 (Depositor) 

Literature

Protein 12 with aldehyde deformylating oxygenase activity from Gloeobacter violaceus

Wilson, D.K., Mak, W.S., Siegel, J.B.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 27.81 kDa 
• Atom Count: 2,013 
• Modeled Residue Count: 219 
• Deposited Residue Count: 243 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aldehyde decarbonylase	A	243	Gloeobacter violaceus PCC 7421	Mutation(s): 0  Gene Names: gll3146 EC: 4.1.99.5
UniProt
Find proteins for Q7NGM3 (Gloeobacter violaceus (strain ATCC 29082 / PCC 7421)) Explore Q7NGM3  Go to UniProtKB:  Q7NGM3

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
STE	D [auth A]	STEARIC ACID C18 H36 O2 QIQXTHQIDYTFRH-UHFFFAOYSA-N
EDO	B [auth A], C [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.25 Å
• R-Value Free:  0.167 (Depositor), 0.170 (DCC) 
• R-Value Work:  0.139 (Depositor), 0.150 (DCC) 
• R-Value Observed: 0.140 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.842	α = 90
b = 95.424	β = 90
c = 39.255	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2018-02-28 
Deposition Author(s): Wilson, D.K.

Revision History  

• Version 1.0: 2018-02-28
  Type: Initial release
  
• Version 1.1: 2024-03-06
  Changes: Data collection, Database references