Short chain dehydrogenase (SCR) cryoEM structure with NADP and ethyl 4-chloroacetoacetate

Experimental Data Snapshot

  • Resolution: 3.13 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report

This is version 1.3 of the entry. See complete history


Oligomeric interactions maintain active-site structure in a noncooperative enzyme family.

Li, Y.Zhang, R.Wang, C.Forouhar, F.Clarke, O.B.Vorobiev, S.Singh, S.Montelione, G.T.Szyperski, T.Xu, Y.Hunt, J.F.

(2022) EMBO J 41: e108368-e108368

  • DOI: https://doi.org/10.15252/embj.2021108368
  • Primary Citation of Related Structures:  
    7DLD, 7DLL, 7DLM, 7DMG, 7DN1, 7VYQ

  • PubMed Abstract: 

    The evolutionary benefit accounting for widespread conservation of oligomeric structures in proteins lacking evidence of intersubunit cooperativity remains unclear. Here, crystal and cryo-EM structures, and enzymological data, demonstrate that a conserved tetramer interface maintains the active-site structure in one such class of proteins, the short-chain dehydrogenase/reductase (SDR) superfamily. Phylogenetic comparisons support a significantly longer polypeptide being required to maintain an equivalent active-site structure in the context of a single subunit. Oligomerization therefore enhances evolutionary fitness by reducing the metabolic cost of enzyme biosynthesis. The large surface area of the structure-stabilizing oligomeric interface yields a synergistic gain in fitness by increasing tolerance to activity-enhancing yet destabilizing mutations. We demonstrate that two paralogous SDR superfamily enzymes with different specificities can form mixed heterotetramers that combine their individual enzymological properties. This suggests that oligomerization can also diversify the functions generated by a given metabolic investment, enhancing the fitness advantage provided by this architectural strategy.

  • Organizational Affiliation

    Key Laboratory of Industrial Biotechnology of Ministry of Education and School of Biotechnology, Jiangnan University, Wuxi, China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Carbonyl ReductaseA,
C [auth F],
D [auth G]
280Candida parapsilosisMutation(s): 0 
Gene Names: DQ675534
EC: 1.1.1
Find proteins for G8BHG6 (Candida parapsilosis (strain CDC 317 / ATCC MYA-4646))
Explore G8BHG6 
Go to UniProtKB:  G8BHG6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG8BHG6
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.13 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China2018YFA0900302
Ministry of Education (MoE, China)China201706790073

Revision History  (Full details and data files)

  • Version 1.0: 2022-04-06
    Type: Initial release
  • Version 1.1: 2022-07-20
    Changes: Database references
  • Version 1.2: 2022-08-10
    Changes: Structure summary
  • Version 1.3: 2022-09-14
    Changes: Database references