6CT0

Atomic Structure of the E2 Inner Core of Human Pyruvate Dehydrogenase Complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 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


Literature

Atomic Structure of the E2 Inner Core of Human Pyruvate Dehydrogenase Complex.

Jiang, J.Baiesc, F.L.Hiromasa, Y.Yu, X.Hui, W.H.Dai, X.Roche, T.E.Zhou, Z.H.

(2018) Biochemistry 57: 2325-2334

  • DOI: 10.1021/acs.biochem.8b00357
  • Primary Citation of Related Structures:  
    6CT0

  • PubMed Abstract: 
  • Pyruvate dehydrogenase complex (PDC) is a large multienzyme complex that catalyzes the irreversible conversion of pyruvate to acetyl-coenzyme A with reduction of NAD + . Distinctive from PDCs in lower forms of life, in mammalian PDC, dihydrolipoyl acetyltransferase (E2; E2p in PDC) and dihydrolipoamide dehydrogenase binding protein (E3BP) combine to form a complex that plays a central role in the organization, regulation, and integration of catalytic reactions of PDC ...

    Pyruvate dehydrogenase complex (PDC) is a large multienzyme complex that catalyzes the irreversible conversion of pyruvate to acetyl-coenzyme A with reduction of NAD + . Distinctive from PDCs in lower forms of life, in mammalian PDC, dihydrolipoyl acetyltransferase (E2; E2p in PDC) and dihydrolipoamide dehydrogenase binding protein (E3BP) combine to form a complex that plays a central role in the organization, regulation, and integration of catalytic reactions of PDC. However, the atomic structure and organization of the mammalian E2p/E3BP heterocomplex are unknown. Here, we report the structure of the recombinant dodecahedral core formed by the C-terminal inner-core/catalytic (IC) domain of human E2p determined at 3.1 Å resolution by cryo electron microscopy (cryoEM). The structure of the N-terminal fragment and four other surface areas of the human E2p IC domain exhibit significant differences from those of the other E2 crystal structures, which may have implications for the integration of E3BP in mammals. This structure also allowed us to obtain a homology model for the highly homologous IC domain of E3BP. Analysis of the interactions of human E2p or E3BP with their adjacent IC domains in the dodecahedron provides new insights into the organization of the E2p/E3BP heterocomplex and suggests a potential contribution by E3BP to catalysis in mammalian PDC.


    Organizational Affiliation

    California Nanosystems Institute , University of California, Los Angeles , Los Angeles , California 90095 , United States.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, mitochondrialA [auth 0]647Homo sapiensMutation(s): 0 
Gene Names: DLATDLTA
EC: 2.3.1.12
UniProt & NIH Common Fund Data Resources
Find proteins for P10515 (Homo sapiens)
Explore P10515 
Go to UniProtKB:  P10515
PHAROS:  P10515
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report




Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01GM071940
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesDE025567
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesAI094386
National Science Foundation (NSF, United States)United StatesDMR-1548924
American Heart AssociationUnited States14POST18870059
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United States1S10RR23057
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United States1S10OD018111
National Science Foundation (NSF, United States)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2018-04-18
    Type: Initial release
  • Version 1.1: 2018-05-09
    Changes: Data collection, Database references
  • Version 1.2: 2019-11-27
    Changes: Author supporting evidence
  • Version 1.3: 2019-12-18
    Changes: Other