1ZC2 | pdb_00001zc2

Crystal Structure of plasmid-encoded class C beta-lactamase CMY-2 complexed with citrate molecule

• PDB DOI: https://doi.org/10.2210/pdb1ZC2/pdb

• Classification: HYDROLASE
• Organism(s): Klebsiella pneumoniae
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2005-04-10 Released: 2006-04-25 
• Deposition Author(s): Bauvois, C., Jacquamet, L., Fieulaine, S., Frere, J.-M., Galleni, M., Ferrer, J.-L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 
  0.299 (Depositor), 0.300 (DCC) 
• R-Value Work: 
  0.225 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

Literature

Crystallographic structure of plasmid-encoded CMY-2 beta-lactamase revealed citrate molecule in the active site.

Bauvois, C., Jacquamet, L., Fieulaine, S., Frere, J.-M., Galleni, M., Ferrer, J.-L.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 80.18 kDa 
• Atom Count: 6,033 
• Modeled Residue Count: 714 
• Deposited Residue Count: 722 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
beta-lactamase class C	A, B	361	Klebsiella pneumoniae	Mutation(s): 0  Gene Names: bla CMY-2 EC: 3.5.2.6
UniProt
Find proteins for Q48434 (Klebsiella pneumoniae) Explore Q48434  Go to UniProtKB:  Q48434

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CIT	C [auth A], D [auth B]	CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free:  0.299 (Depositor), 0.300 (DCC) 
• R-Value Work:  0.225 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.71	α = 90
b = 97.1	β = 90
c = 103.31	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-04-25 
Deposition Author(s): Bauvois, C., Jacquamet, L., Fieulaine, S., Frere, J.-M., Galleni, M., Ferrer, J.-L.

Revision History  

• Version 1.0: 2006-04-25
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-03-13
  Changes: Data collection, Database references, Derived calculations