Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 36.21 kDa 
• Atom Count: 2666 
• Residue Count: 321 
• Unique protein chains: 1

2PIA

PHTHALATE DIOXYGENASE REDUCTASE: A MODULAR STRUCTURE FOR ELECTRON TRANSFER FROM PYRIDINE NUCLEOTIDES TO [2FE-2S]

• DOI: 10.2210/pdb2PIA/pdb

• Classification: REDUCTASE
• Organism(s): Burkholderia cepacia
• Mutation(s): No 


• Deposited: 1993-02-15 Released: 1993-04-15 
• Deposition Author(s): Correll, C.C., Batie, C.J., Ballou, D.P., Ludwig, M.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Work: 0.186 

Literature

Phthalate dioxygenase reductase: a modular structure for electron transfer from pyridine nucleotides to [2Fe-2S].

Correll, C.C., Batie, C.J., Ballou, D.P., Ludwig, M.L.

(1992) Science 258: 1604-1610

• PubMed: 1280857 
• DOI: 10.1126/science.1280857
• Structures With Same Primary Citation


• PubMed Abstract: 
  

Phthalate dioxygenase reductase (PDR) is a prototypical iron-sulfur flavoprotein (36 kilodaltons) that utilizes flavin mononucleotide (FMN) to mediate electron transfer from the two-electron donor, reduced nicotinamide adenine nucleotide (NADH), to the one-electron acceptor, [2Fe-2S]. The crystal structure of oxidized PDR from Pseudomonas cepacia has been analyzed at 2.0 angstrom resolution resolution; reduced PDR and pyridine nucleotide complexes have been analyzed at 2.7 angstrom resolution. NADH, FMN, and the [2Fe-2S] cluster, bound to distinct domains, are brought together near a central cleft in the molecule, with only 4.9 angstroms separating the flavin 8-methyl and a cysteine sulfur ligated to iron. The domains that bind FMN and [2Fe-2S] are packed so that the flavin ring and the plane of the [2Fe-2S] core are approximately perpendicular. The [2Fe-2S] group is bound by four cysteines in a site resembling that in plant ferredoxins, but its redox potential (-174 millivolts at pH 7.0) is much higher than the potentials of plant ferredoxins. Structural and sequence similarities assign PDR to a distinct family of flavoprotein reductases, all related to ferredoxin NADP(+)-reductase.

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Related Citations: 

• Crystallographic Characterization of Phthalate Oxygenase Reductase, an Iron-Sulfur Flavoprotein from Pseudomonas Cepacia
  Correll, C.C., Batie, C.J., Ballou, D.P., Ludwig, M.L.
  (1985) J Biol Chem 260: 14633

• Structure Determination of an Iron-Sulfur Flavoprotein
  Correll, C.C., Ludwig, M.L.
  (1991) Flavins And Flavoproteins --: 743

• Phthalate Dioxygenase Reductase and Related Flavin-Iron-Sulfur Containing Electron Transferases
  Batie, C.J., Ballou, D.P., Correll, C.C.
  (1991) Chemistry And Biochemistry Of Flavoenzymes --: 543

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Organizational Affiliation: 

Department of Biological Chemistry and Biophysics, University of Michigan, Ann Arbor 48109.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
PHTHALATE DIOXYGENASE REDUCTASE	A	321	Burkholderia cepacia	Mutation(s): 0  Gene Names: ophA1 EC: 1.18.1 (PDB Primary Data), 1 (UniProt)
Find proteins for P33164 (Burkholderia cepacia) Explore P33164  Go to UniProtKB:  P33164

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FMN	A	FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N
FES	A	FE2/S2 (INORGANIC) CLUSTER Fe2 S2 NIXDOXVAJZFRNF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Work: 0.186 
• Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 114.4	α = 90
b = 114.4	β = 90
c = 77.8	γ = 120

Software Package:

Software Name	Purpose
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1993-02-15 
• Released Date: 1993-04-15 
Deposition Author(s): Correll, C.C., Batie, C.J., Ballou, D.P., Ludwig, M.L.

Revision History 

• Version 1.0: 1993-04-15
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Advisory, Derived calculations, Other