4H4X

Crystal Structure of Ferredoxin reductase, BphA4 E175A/T176R/Q177G mutant (oxidized form)

• PDB DOI: https://doi.org/10.2210/pdb4H4X/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Acidovorax sp. KKS102
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2012-09-18 Released: 2013-10-09 
• Deposition Author(s): Nishizawa, A., Harada, A., Senda, M., Tachihara, Y., Muramatsu, D., Kishigami, S., Mori, S., Sugiyama, K., Senda, T., Kimura, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.217 
• R-Value Work: 0.191 
• R-Value Observed: 0.192 

Starting Model: experimental

Literature

Random Mutagenesis with the Project Assessment for Complete Conversion of Co-Factor Specificity of a Ferredoxin Reductase BphA4

Nishizawa, A., Harada, A., Senda, M., Tachihara, Y., Muramatsu, D., Kishigami, S., Mori, S., Sugiyama, K., Senda, T., Kimura, S.

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.

Macromolecule Content

• Total Structure Weight: 44.39 kDa 
• Atom Count: 3,356 
• Modelled Residue Count: 401 
• Deposited Residue Count: 408 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Biphenyl dioxygenase ferredoxin reductase subunit	A	408	Acidovorax sp. KKS102	Mutation(s): 3  Gene Names: bphA4 EC: 1.18.1.3
UniProt
Find proteins for E7FJB9 (Acidovorax sp. KKS102) Explore E7FJB9  Go to UniProtKB:  E7FJB9

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD	B [auth A]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N
GOL	C [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
FMT	D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], K [auth A]	FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 0.217 
• R-Value Work: 0.191 
• R-Value Observed: 0.192 
• Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 98.215	α = 90
b = 98.215	β = 90
c = 170.804	γ = 120

Software Package:

Software Name	Purpose
MAR345	data collection
MOLREP	phasing
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-10-09 
Deposition Author(s): Nishizawa, A., Harada, A., Senda, M., Tachihara, Y., Muramatsu, D., Kishigami, S., Mori, S., Sugiyama, K., Senda, T., Kimura, S.

Revision History  

• Version 1.0: 2013-10-09
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 1.2: 2023-11-08
  Changes: Data collection, Database references, Derived calculations, Refinement description