7KCQ

Symmetry in Yeast Alcohol Dehydrogenase 1 -Open Form of Apoenzyme


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Cryo-Electron Microscopy Structures of Yeast Alcohol Dehydrogenase.

Guntupalli, S.R.Li, Z.Chang, L.Plapp, B.V.Subramanian, R.

(2021) Biochemistry 60: 663-677

  • DOI: 10.1021/acs.biochem.0c00921
  • Primary Citation of Related Structures:  
    7KCB, 7KC2, 7KCQ, 7KJY

  • PubMed Abstract: 
  • Structures of yeast alcohol dehydrogenase determined by X-ray crystallography show that the subunits have two different conformational states in each of the two dimers that form the tetramer. Apoenzyme and holoenzyme complexes relevant to the catalytic mechanism were described, but the asymmetry led to questions about the cooperativity of the subunits in catalysis ...

    Structures of yeast alcohol dehydrogenase determined by X-ray crystallography show that the subunits have two different conformational states in each of the two dimers that form the tetramer. Apoenzyme and holoenzyme complexes relevant to the catalytic mechanism were described, but the asymmetry led to questions about the cooperativity of the subunits in catalysis. This study used cryo-electron microscopy (cryo-EM) to provide structures for the apoenzyme, two different binary complexes with NADH, and a ternary complex with NAD + and 2,2,2-trifluoroethanol. All four subunits in each of these complexes are identical, as the tetramers have D 2 symmetry, suggesting that there is no preexisting asymmetry and that the subunits can be independently active. The apoenzyme and one enzyme-NADH complex have "open" conformations and the inverted coordination of the catalytic zinc with Cys-43, His-66, Glu-67, and Cys-153, whereas another enzyme-NADH complex and the ternary complex have closed conformations with the classical coordination of the zinc with Cys-43, His-66, Cys-153, and a water or the oxygen of trifluoroethanol. The conformational change involves interactions of Arg-340 with the pyrophosphate group of the coenzyme and Glu-67. The cryo-EM and X-ray crystallography studies provide structures relevant for the catalytic mechanism.


    Related Citations: 
    • Mechanistic implications from structures of yeast alcohol dehydrogenase complexed with coenzyme and an alcohol.
      Plapp, B.V., Charlier, H.A., Ramaswamy, S.
      (2016) Arch Biochem Biophys 591: 35

    Organizational Affiliation

    Department of Biological Sciences and Weldon School of Biomedical Engineering, Purdue University, West Lafayette, Indiana 47907, United States.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Alcohol dehydrogenase ABCD348Saccharomyces cerevisiaeMutation(s): 0 
Gene Names: ADH1YOL086C
EC: 1.1.1.1
Find proteins for S5RZC2 (Saccharomyces cerevisiae)
Explore S5RZC2 
Go to UniProtKB:  S5RZC2
Protein Feature View
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-03-31
    Type: Initial release