Biological Assembly 1  

 3D View: Structure

Global Symmetry: Icosahedral - I  (3D View)
Global Stoichiometry: Homo 60-mer - A60 

Biological assembly 1 assigned by authors and generated by (software)

Macromolecule Content

• Total Structure Weight: 69.07 kDa 
• Atom Count: 1760 
• Residue Count: 229 
• Unique protein chains: 1

6CT0

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

• DOI: 10.2210/pdb6CT0/pdb
• EMDataResource: EMD-7610

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-03-21 Released: 2018-04-18 
• Deposition Author(s): Jiang, J., Baiesc, F.L., Hiromasa, Y., Yu, X., Hui, W.H., Dai, X., Roche, T.E., Zhou, Z.H.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Science Foundation (NSF, United States), American Heart Association

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Experimental Data Snapshot

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

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

• PubMed: 29608861 
• 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. 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.

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Organizational Affiliation: 

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

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial	0	647	Homo sapiens	Mutation(s): 0  Gene Names: DLAT, DLTA EC: 2.3.1.12
Find proteins for P10515 (Homo sapiens) Explore P10515  Go to UniProtKB:  P10515
NIH Common Fund Data Resources
PHAROS:  P10515 GTEx:  ENSG00000150768

Experimental Data & Validation

Experimental Data

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2018-03-21 
• Released Date: 2018-04-18 
Deposition Author(s): Jiang, J., Baiesc, F.L., Hiromasa, Y., Yu, X., Hui, W.H., Dai, X., Roche, T.E., Zhou, Z.H.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01GM071940
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	DE025567
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	AI094386
National Science Foundation (NSF, United States)	United States	DMR-1548924
American Heart Association	United States	14POST18870059
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	1S10RR23057
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	1S10OD018111
National Science Foundation (NSF, United States)	United States	--

Revision History 

• 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