5HMQ

xylose isomerase-like TIM barrel/4-hydroxyphenylpyruvate dioxygenase fusion protein

• PDB DOI: https://doi.org/10.2210/pdb5HMQ/pdb

• Classification: LYASE
• Organism(s): Pseudomonas putida KT2440
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2016-01-16 Released: 2016-10-19 
• Deposition Author(s): Peek, J., Christendat, D.
• Funding Organization(s): Natural Sciences and Engineering Research Council (NSERC, Canada)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.37 Å
• R-Value Free: 0.229 
• R-Value Work: 0.204 
• R-Value Observed: 0.205 

Literature

Structure of a putative xylose isomerase-like TIM barrel/4-hydroxyphenylpyruvate dioxygenase fusion protein from Pseudomonas putida at 2.4 Angstroms resolution.

Peek, J., Christendat, D.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

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

Biological assembly 3 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 426.94 kDa 
• Atom Count: 30,198 
• Modelled Residue Count: 3,732 
• Deposited Residue Count: 3,822 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
4-hydroxyphenylpyruvate dioxygenase	A, B, C, D, E, F	637	Pseudomonas putida KT2440	Mutation(s): 0  Gene Names: quiC, PP_2554 EC: 4.2.1.118
UniProt
Find proteins for Q88JU3 (Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440)) Explore Q88JU3  Go to UniProtKB:  Q88JU3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	G [auth A], H [auth A], I [auth B], J [auth B], K [auth C], L [auth C], M [auth D], N [auth D], O [auth E], P [auth E], Q [auth F], R [auth F]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C, D, E, F	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.37 Å
• R-Value Free: 0.229 
• R-Value Work: 0.204 
• R-Value Observed: 0.205 
• Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 262.503	α = 90
b = 262.503	β = 90
c = 139.644	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
Aimless	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-10-19 
Deposition Author(s): Peek, J., Christendat, D.

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Funding Organization	Location	Grant Number
Natural Sciences and Engineering Research Council (NSERC, Canada)	Canada	--

Revision History  

• Version 1.0: 2016-10-19
  Type: Initial release
  
• Version 1.1: 2017-09-13
  Changes: Author supporting evidence, Derived calculations
• Version 1.2: 2020-01-08
  Changes: Author supporting evidence