4CKD

Model of complex between the E.coli enzyme beta-galactosidase and four single chain Fv antibody domains scFv13R4.


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 13.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Molecular Mechanism of Antibody-Mediated Activation of Beta-Galactosidase.

Vinothkumar, K.R.Mcmullan, G.Henderson, R.

(2014) Structure 22: 621

  • DOI: 10.1016/j.str.2014.01.011
  • Primary Citation of Related Structures:  
    4CKD

  • PubMed Abstract: 
  • Binding of a single-chain Fv antibody to Escherichia coli β-galactosidase (β-gal) is known to stabilize the enzyme and activate several inactive point mutants, historically called antibody-mediated enzyme formation mutants. To understand the nature of this activation, we have determined by electron cryo-microscopy the structure of the complex between β-gal and the antibody scFv13R4 ...

    Binding of a single-chain Fv antibody to Escherichia coli β-galactosidase (β-gal) is known to stabilize the enzyme and activate several inactive point mutants, historically called antibody-mediated enzyme formation mutants. To understand the nature of this activation, we have determined by electron cryo-microscopy the structure of the complex between β-gal and the antibody scFv13R4. Our structure localizes the scFv13R4 binding site to the crevice between domains 1 and 3 in each β-gal subunit. The mutations that scFv13R4 counteracts are located between the antibody binding site and the active site of β-gal, at one end of the TIM-barrel that forms domain 3 where the substrate lactose is hydrolyzed. The mode of binding suggests how scFv stabilizes both the active site of β-gal and the tetrameric state.


    Organizational Affiliation

    MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK. Electronic address: rh15@mrc-lmb.cam.ac.uk.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
BETA-GALACTOSIDASEA, B, C, D1024Escherichia coli K-12Mutation(s): 0 
Gene Names: lacZb0344JW0335
EC: 3.2.1.23
UniProt
Find proteins for P00722 (Escherichia coli (strain K12))
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Go to UniProtKB:  P00722
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
SCFV13R4 ANTIBODY FV HEAVY CHAINE [auth H], F [auth I], G [auth J], H [auth K]114Mus musculusMutation(s): 0 
UniProt
Find proteins for P01823 (Mus musculus)
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
SCFV13R4 ANTIBODY FV LIGHT CHAINI [auth L], J [auth M], K [auth N], L [auth O]107Mus musculusMutation(s): 0 
Gene Names: Gm10881
UniProt
Find proteins for P01642 (Mus musculus)
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Go to UniProtKB:  P01642
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 13.0 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-01-15
    Type: Initial release
  • Version 1.1: 2014-03-26
    Changes: Database references, Source and taxonomy, Structure summary
  • Version 1.2: 2014-04-23
    Changes: Database references
  • Version 1.3: 2017-08-30
    Changes: Data collection
  • Version 1.4: 2019-10-23
    Changes: Data collection, Other