8XL9 | pdb_00008xl9

Structure of human pyruvate carboxylase

• PDB DOI: https://doi.org/10.2210/pdb8XL9/pdb
• EM Map EMD-38442: EMDB EMDataResource

• Classification: LIGASE
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 2023-12-25 Released: 2024-11-13 
• Deposition Author(s): Zhou, F.Y., Zhang, Y.Y., Zhou, Q., Hu, Q.
• Funding Organization(s): Westlake Education Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.61 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural insights into human propionyl-CoA carboxylase (PCC) and 3-methylcrotonyl-CoA carboxylase (MCC).

Zhou, F.Y., Zhang, Y.Y., Zhu, Y., Zhou, Q., Shi, Y., Hu, Q.

(2024) Elife 

• DOI: https://doi.org/10.7554/eLife.98885.2

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 520.17 kDa 
• Atom Count: 21,044 
• Modeled Residue Count: 2,732 
• Deposited Residue Count: 4,712 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pyruvate carboxylase, mitochondrial	A, B, C, D	1,178	Homo sapiens	Mutation(s): 0  EC: 6.4.1.1
UniProt & NIH Common Fund Data Resources
Find proteins for P11498 (Homo sapiens) Explore P11498  Go to UniProtKB:  P11498
PHAROS:  P11498 GTEx:  ENSG00000173599

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BTN (Subject of Investigation/LOI)	E [auth A], F [auth B], G [auth C], H [auth D]	BIOTIN C10 H16 N2 O3 S YBJHBAHKTGYVGT-ZKWXMUAHSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.61 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-11-13 
Deposition Author(s): Zhou, F.Y., Zhang, Y.Y., Zhou, Q., Hu, Q.

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Funding Organization	Location	Grant Number
Westlake Education Foundation	China	101256021901

Revision History  

• Version 1.0: 2024-11-13
  Type: Initial release
  
• Version 1.1: 2024-11-27
  Changes: Data collection