4BNB | pdb_00004bnb

Nitroreductase CinD from Lactococcus lactis in complex with 4- nitroquinoline 1-oxide

• PDB DOI: https://doi.org/10.2210/pdb4BNB/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Lactococcus lactis subsp. lactis Il1403
• Expression System: Escherichia coli DH5[alpha]
• Mutation(s): No 


• Deposited: 2013-05-13 Released: 2014-05-28 
• Deposition Author(s): Waltersperger, S., Oberholzer, A.E., Baumgartner, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.48 Å
• R-Value Free: 
  0.165 (Depositor), 0.170 (DCC) 
• R-Value Work: 
  0.135 (Depositor), 0.140 (DCC) 
• R-Value Observed: 
  0.137 (Depositor) 

Starting Model: experimental

Literature

Nitroreductase Cind from Lactococcus Lactis in Complex with 2 4-Nitroquinoline 1-Oxidenone

Waltersperger, S., Oberholzer, A.E., Baumgartner, R.

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: 23.27 kDa 
• Atom Count: 1,816 
• Modeled Residue Count: 189 
• Deposited Residue Count: 201 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
COPPER INDUCED NITROREDUCTASE D	A	201	Lactococcus lactis subsp. lactis Il1403	Mutation(s): 0
UniProt
Find proteins for Q9CED0 (Lactococcus lactis subsp. lactis (strain IL1403)) Explore Q9CED0  Go to UniProtKB:  Q9CED0

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FMN	B [auth A]	FLAVIN MONONUCLEOTIDE C17 H21 N4 O9 P FVTCRASFADXXNN-SCRDCRAPSA-N
YHX	C [auth A], D [auth A]	4-NITROQUINOLINE 1-OXIDE C9 H6 N2 O3 YHQDZJICGQWFHK-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.48 Å
• R-Value Free:  0.165 (Depositor), 0.170 (DCC) 
• R-Value Work:  0.135 (Depositor), 0.140 (DCC) 
• R-Value Observed: 0.137 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.052	α = 90
b = 120.518	β = 90
c = 68.444	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-05-28 
Deposition Author(s): Waltersperger, S., Oberholzer, A.E., Baumgartner, R.

Revision History  

• Version 1.0: 2014-05-28
  Type: Initial release
  
• Version 2.0: 2023-12-20
  Changes: Atomic model, Data collection, Database references, Derived calculations, Other, Refinement description