Structure of the Resuscitation Promoting Factor Interacting protein RipA mutated at E444

Experimental Data Snapshot

  • Resolution: 1.63 Å
  • R-Value Free: 0.187 
  • R-Value Work: 0.135 
  • R-Value Observed: 0.138 

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Mutational and structural study of RipA, a key enzyme in Mycobacterium tuberculosis cell division: evidence for the L-to-D inversion of configuration of the catalytic cysteine.

Squeglia, F.Ruggiero, A.Romano, M.Vitagliano, L.Berisio, R.

(2014) Acta Crystallogr D Biol Crystallogr 70: 2295-2300

  • DOI: https://doi.org/10.1107/S1399004714013674
  • Primary Citation of Related Structures:  
    4Q4G, 4Q4N, 4Q4T

  • PubMed Abstract: 

    RipA is a key cysteine protease of Mycobacterium tuberculosis as it is responsible for bacterial daughter-cell separation. Although it is an important target for antimicrobial development, its mechanism of action and its interaction pattern with its substrate are hitherto unknown. By combining crystallographic and mutational studies with functional assays and molecular modelling, it is shown that the catalytic activity of the enzyme relies on a Cys-His-Glu triad and the impact of the mutation of each residue of the triad on the structure and function of RipA is analysed. Unexpectedly, the crystallographic analyses reveal that mutation of the glutamic acid to alanine results in inversion of the configuration of the catalytic cysteine. The consequent burial of the catalytic cysteine side chain explains the enzyme inactivation upon mutation. These data point to a novel role of the acidic residue often present in the triad of cysteine proteases as a supervisor of cysteine configuration through preservation of the local structural integrity.

  • Organizational Affiliation

    Institute of Biostructures and Bioimaging, CNR, Naples, Italy.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Peptidoglycan endopeptidase RipA472Mycobacterium tuberculosis H37RvMutation(s): 1 
Gene Names: ripARv1477
EC: 3.4
Find proteins for O53168 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore O53168 
Go to UniProtKB:  O53168
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO53168
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.63 Å
  • R-Value Free: 0.187 
  • R-Value Work: 0.135 
  • R-Value Observed: 0.138 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 36.711α = 90
b = 65.27β = 90
c = 68.195γ = 90
Software Package:
Software NamePurpose

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-09-10
    Type: Initial release
  • Version 1.1: 2014-09-24
    Changes: Database references
  • Version 1.2: 2024-02-28
    Changes: Data collection, Database references, Derived calculations