6ZNG

MaeB full-length acetyl-CoA bound state


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.72 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.190 

Starting Models: experimental
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This is version 2.1 of the entry. See complete history


Literature

A rotary mechanism for allostery in bacterial hybrid malic enzymes.

Harding, C.J.Cadby, I.T.Moynihan, P.J.Lovering, A.L.

(2021) Nat Commun 12: 1228-1228

  • DOI: https://doi.org/10.1038/s41467-021-21528-2
  • Primary Citation of Related Structures:  
    6ZN4, 6ZN7, 6ZN9, 6ZNE, 6ZNG, 6ZNJ, 6ZNK, 6ZNR, 6ZNT, 6ZNU

  • PubMed Abstract: 

    Bacterial hybrid malic enzymes (MaeB grouping, multidomain) catalyse the transformation of malate to pyruvate, and are a major contributor to cellular reducing power and carbon flux. Distinct from other malic enzyme subtypes, the hybrid enzymes are regulated by acetyl-CoA, a molecular indicator of the metabolic state of the cell. Here we solve the structure of a MaeB protein, which reveals hybrid enzymes use the appended phosphotransacetylase (PTA) domain to form a hexameric sensor that communicates acetyl-CoA occupancy to the malic enzyme active site, 60 Å away. We demonstrate that allostery is governed by a large-scale rearrangement that rotates the catalytic subunits 70° between the two states, identifying MaeB as a new model enzyme for the study of ligand-induced conformational change. Our work provides the mechanistic basis for metabolic control of hybrid malic enzymes, and identifies inhibition-insensitive variants that may find utility in synthetic biology.


  • Organizational Affiliation

    Department of Biosciences, University of Birmingham, Birmingham, UK. cjh30@st-andrews.ac.uk.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
NADP-dependent malate dehydrogenase,Malate dehydrogenase
A, B, C, D, E
A, B, C, D, E, F
791Bdellovibrio bacteriovorus HD100Mutation(s): 0 
Gene Names: Bd1834mdhBd1833
EC: 1.1.1.40
UniProt
Find proteins for Q6MM15 (Bdellovibrio bacteriovorus (strain ATCC 15356 / DSM 50701 / NCIMB 9529 / HD100))
Explore Q6MM15 
Go to UniProtKB:  Q6MM15
Find proteins for Q6MM14 (Bdellovibrio bacteriovorus (strain ATCC 15356 / DSM 50701 / NCIMB 9529 / HD100))
Explore Q6MM14 
Go to UniProtKB:  Q6MM14
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupsQ6MM14Q6MM15
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.72 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.190 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 250.422α = 90
b = 144.792β = 100.61
c = 171.138γ = 90
Software Package:
Software NamePurpose
xia2data scaling
PHENIXrefinement
PDB_EXTRACTdata extraction
XDSdata reduction
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Biotechnology and Biological Sciences Research Council (BBSRC)United Kingdommibtp studentship

Revision History  (Full details and data files)

  • Version 1.0: 2021-02-17
    Type: Initial release
  • Version 2.0: 2021-03-17
    Changes: Advisory, Atomic model, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary
  • Version 2.1: 2024-01-31
    Changes: Advisory, Data collection, Database references, Refinement description