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PDBsum entry 3m6b

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protein ligands links
Hydrolase/antibiotic PDB id
3m6b

 

 

 

 

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Contents
Protein chain
265 a.a. *
Ligands
PO4 ×2
1RG ×2
Waters ×297
* Residue conservation analysis
PDB id:
3m6b
Name: Hydrolase/antibiotic
Title: Crystal structure of the ertapenem pre-isomerized covalent adduct with tb b-lactamase
Structure: Beta-lactamase. Chain: a. Synonym: penicillinase. Engineered: yes
Source: Mycobacterium tuberculosis. Organism_taxid: 1773. Gene: blaa, blac, rv2068c, mt2128, mtcy49.07c. Expressed in: escherichia coli. Expression_system_taxid: 562.
Resolution:
1.30Å     R-factor:   0.149     R-free:   0.176
Authors: L.W.Tremblay,F.Fan,J.S.Blanchard
Key ref: L.W.Tremblay et al. (2010). Biochemical and structural characterization of Mycobacterium tuberculosis beta-lactamase with the carbapenems ertapenem and doripenem. Biochemistry, 49, 3766-3773. PubMed id: 20353175
Date:
15-Mar-10     Release date:   14-Apr-10    
PROCHECK
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 Headers
 References

Protein chain
Pfam   ArchSchema ?
P9WKD3  (BLAC_MYCTU) -  Beta-lactamase from Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
Seq:
Struc:
307 a.a.
265 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Enzyme reactions 
   Enzyme class: E.C.3.5.2.6  - beta-lactamase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]

      Pathway:
Penicillin Biosynthesis and Metabolism
      Reaction: a beta-lactam + H2O = a substituted beta-amino acid
      Cofactor: Zn(2+)

 

 
Biochemistry 49:3766-3773 (2010)
PubMed id: 20353175  
 
 
Biochemical and structural characterization of Mycobacterium tuberculosis beta-lactamase with the carbapenems ertapenem and doripenem.
L.W.Tremblay, F.Fan, J.S.Blanchard.
 
  ABSTRACT  
 
Despite the enormous success of beta-lactams as broad-spectrum antibacterials, they have never been widely used for the treatment of tuberculosis (TB) due to intrinsic resistance that is caused by the presence of a chromosomally encoded gene (blaC) in Mycobacterium tuberculosis. Our previous studies of TB BlaC revealed that this enzyme is an extremely broad-spectrum beta-lactamase hydrolyzing all beta-lactam classes. Carbapenems are slow substrates that acylate the enzyme but are only slowly deacylated and can therefore act also as potent inhibitors of BlaC. We conducted the in vitro characterization of doripenem and ertapenem with BlaC. A steady-state kinetic burst was observed with both compounds with magnitudes proportional to the concentration of BlaC used. The results provide apparent K(m) and k(cat) values of 0.18 microM and 0.016 min(-1) for doripenem and 0.18 microM and 0.017 min(-1) for ertapenem, respectively. FTICR mass spectrometry demonstrated that the doripenem and ertapenem acyl-enzyme complexes remain stable over a time period of 90 min. The BlaC-doripenem covalent complex obtained after a 90 min soak was determined to 2.2 A, while the BlaC-ertapenem complex obtained after a 90 min soak was determined to 2.0 A. The 1.3 A diffraction data from a 10 min ertapenem-soaked crystal revealed an isomerization occurring in the BlaC-ertapenem adduct in which the original Delta(2)-pyrroline ring was tautomerized to generate the Delta(1)-pyrroline ring. The isomerization leads to the flipping of the carbapenem hydroxyethyl group to hydrogen bond to carboxyl O2 of Glu166. The hydroxyethyl flip results in both the decreased basicity of Glu166 and a significant increase in the distance between carboxyl O2 of Glu166 and the catalytic water molecule, slowing hydrolysis.
 

 

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