Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Dihedral - D2  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content

• Total Structure Weight: 258.60 kDa 
• Atom Count: 17641 
• Modelled Residue Count: 2141 
• Deposited Residue Count: 2344 
• Unique protein chains: 1

4CY8

2-hydroxybiphenyl 3-monooxygenase (HbpA) in complex with FAD

• PDB DOI: 10.2210/pdb4CY8/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Pseudomonas nitroreducens HBP1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2014-04-10 Released: 2015-03-18 
• Deposition Author(s): Jensen, C.N., Farrugia, J.E., Frank, A., Man, H., Hart, S., Turkenburg, J.P., Grogan, G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.03 Å
• R-Value Free: 0.202 
• R-Value Work: 0.169 
• R-Value Observed: 0.171 

Literature

Structures of the Apo and Fad-Bound Forms of 2-Hydroxybiphenyl 3-Monooxygenase (Hbpa) Locate Activity Hotspots Identified by Using Directed Evolution.

Jensen, C.N., Mielke, T., Farrugia, J.E., Frank, A., Man, H., Hart, S., Turkenburg, J.P., Grogan, G.

(2015) Chembiochem 16: 968

• PubMed: 25737306 
• DOI: 10.1002/cbic.201402701
• Primary Citation of Related Structures:  
  4CY6, 4CY8


• PubMed Abstract: 
  

The FAD-dependent monooxygenase HbpA from Pseudomonas azelaica HBP1 catalyses the hydroxylation of 2-hydroxybiphenyl (2HBP) to 2,3-dihydroxybiphenyl (23DHBP). HbpA has been used extensively as a model for studying flavoprotein hydroxylases under process conditions, and has also been subjected to directed-evolution experiments that altered its catalytic properties. The structure of HbpA has been determined in its apo and FAD-complex forms to resolutions of 2.76 and 2.03 Å, respectively. Comparisons of the HbpA structure with those of homologues, in conjunction with a model of the reaction product in the active site, reveal His48 as the most likely acid/base residue to be involved in the hydroxylation mechanism. Mutation of His48 to Ala resulted in an inactive enzyme. The structures of HbpA also provide evidence that mutants achieved by directed evolution that altered activity are comparatively remote from the substrate-binding site.

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Organizational Affiliation: 

York Structural Biology Laboratory, Department of Chemistry, University of York, Heslington, York, YO10 5DD (UK).

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2-HYDROXYBIPHENYL 3-MONOOXYGENASE	A, B, C, D	586	Pseudomonas nitroreducens HBP1	Mutation(s): 1  EC: 1.14.13.44
UniProt
Find proteins for O06647 (Pseudomonas nitroreducens) Explore O06647  Go to UniProtKB:  O06647

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FDA	E [auth A], F [auth B], G [auth C], H [auth D]	DIHYDROFLAVINE-ADENINE DINUCLEOTIDE C27 H35 N9 O15 P2 YPZRHBJKEMOYQH-UYBVJOGSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.03 Å
• R-Value Free: 0.202 
• R-Value Work: 0.169 
• R-Value Observed: 0.171 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80	α = 114.09
b = 96.18	β = 95.8
c = 102.16	γ = 109.31

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
SCALA	data scaling
BALBES	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2014-04-10 
• Released Date: 2015-03-18 
Deposition Author(s): Jensen, C.N., Farrugia, J.E., Frank, A., Man, H., Hart, S., Turkenburg, J.P., Grogan, G.

Revision History  

• Version 1.0: 2015-03-18
  Type: Initial release
  
• Version 1.1: 2015-04-22
  Changes: Database references