Crystal structure of a putative carveol dehydrogenase from Mycobacterium paratuberculosis bound to nicotinamide adenine dinucleotide

Experimental Data Snapshot

  • Resolution: 1.85 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.145 
  • R-Value Observed: 0.147 

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Mycofactocin-associated mycobacterial dehydrogenases with non-exchangeable NAD cofactors.

Haft, D.H.Pierce, P.G.Mayclin, S.J.Sullivan, A.Gardberg, A.S.Abendroth, J.Begley, D.W.Phan, I.Q.Staker, B.L.Myler, P.J.Marathias, V.M.Lorimer, D.D.Edwards, T.E.

(2017) Sci Rep 7: 41074-41074

  • DOI: https://doi.org/10.1038/srep41074
  • Primary Citation of Related Structures:  
    3OEC, 3PGX, 3PXX, 3S55, 3SX2, 3T7C, 3TSC, 4RGB, 5EJ2

  • PubMed Abstract: 

    During human infection, Mycobacterium tuberculosis (Mtb) survives the normally bacteriocidal phagosome of macrophages. Mtb and related species may be able to combat this harsh acidic environment which contains reactive oxygen species due to the mycobacterial genomes encoding a large number of dehydrogenases. Typically, dehydrogenase cofactor binding sites are open to solvent, which allows NAD/NADH exchange to support multiple turnover. Interestingly, mycobacterial short chain dehydrogenases/reductases (SDRs) within family TIGR03971 contain an insertion at the NAD binding site. Here we present crystal structures of 9 mycobacterial SDRs in which the insertion buries the NAD cofactor except for a small portion of the nicotinamide ring. Line broadening and STD-NMR experiments did not show NAD or NADH exchange on the NMR timescale. STD-NMR demonstrated binding of the potential substrate carveol, the potential product carvone, the inhibitor tricyclazol, and an external redox partner 2,6-dichloroindophenol (DCIP). Therefore, these SDRs appear to contain a non-exchangeable NAD cofactor and may rely on an external redox partner, rather than cofactor exchange, for multiple turnover. Incidentally, these genes always appear in conjunction with the mftA gene, which encodes the short peptide MftA, and with other genes proposed to convert MftA into the external redox partner mycofactocin.

  • Organizational Affiliation

    National Institutes of Health (NIH), Bethesda, MD 20892, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
carveol dehydrogenase
A, B, C, D
280Mycobacterium avium subsp. paratuberculosisMutation(s): 0 
Gene Names: MAP_4146
Find proteins for Q73SC8 (Mycolicibacterium paratuberculosis (strain ATCC BAA-968 / K-10))
Explore Q73SC8 
Go to UniProtKB:  Q73SC8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ73SC8
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.85 Å
  • R-Value Free: 0.195 
  • R-Value Work: 0.145 
  • R-Value Observed: 0.147 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 130.03α = 90
b = 57.92β = 91.35
c = 131.74γ = 90
Software Package:
Software NamePurpose
XSCALEdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-11-24
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2015-03-11
    Changes: Database references
  • Version 1.3: 2015-04-15
    Changes: Database references
  • Version 1.4: 2017-02-08
    Changes: Database references
  • Version 1.5: 2023-09-06
    Changes: Data collection, Database references, Derived calculations, Refinement description