4NY7

Bond length analysis of the PqqC Y175F mutant structure shows evidence for bound PQQ in the reduced form

• PDB DOI: https://doi.org/10.2210/pdb4NY7/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Klebsiella pneumoniae subsp. pneumoniae MGH 78578
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2013-12-10 Released: 2015-03-04 
• Deposition Author(s): Fisher, S.J., Puehringer, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.44 Å
• R-Value Free: 0.182 
• R-Value Observed: 0.125 

Literature

Bond length analysis of the PqqC Y175F mutant structure shows evidence for bound PQQ in the reduced form

Fisher, S.J., Puehringer, 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 and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 61.63 kDa 
• Atom Count: 5,137 
• Modelled Residue Count: 508 
• Deposited Residue Count: 516 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pyrroloquinoline-quinone synthase	A, B	258	Klebsiella pneumoniae subsp. pneumoniae MGH 78578	Mutation(s): 1  Gene Names: pqqC, KPN78578_17810, KPN_01811 EC: 1.3.3.11
UniProt
Find proteins for A6T9H1 (Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)) Explore A6T9H1  Go to UniProtKB:  A6T9H1

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PQQ	C [auth A], J [auth B]	PYRROLOQUINOLINE QUINONE C14 H6 N2 O8 MMXZSJMASHPLLR-UHFFFAOYSA-N
GOL	D [auth A], E [auth A], G [auth A], H [auth A], I [auth A], K [auth B], L [auth B], N [auth B], O [auth B], P [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL	F [auth A], M [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.44 Å
• R-Value Free: 0.182 
• R-Value Observed: 0.125 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.998	α = 90
b = 116.02	β = 90
c = 67.52	γ = 90

Software Package:

Software Name	Purpose
MX	data collection
PHENIX	model building
SHELXL-97	refinement
XDS	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-03-04 
Deposition Author(s): Fisher, S.J., Puehringer, S.

Revision History  

• Version 1.0: 2015-03-04
  Type: Initial release
  
• Version 1.1: 2017-11-22
  Changes: Refinement description
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description