8XL3 | pdb_00008xl3

Structure of human propionyl-CoA carboxylase at apo-state (PCC-Apo)

• PDB DOI: https://doi.org/10.2210/pdb8XL3/pdb
• EM Map EMD-38436: EMDB EMDataResource

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


• Deposited: 2023-12-25 Released: 2024-10-30 
• Deposition Author(s): Zhou, F.Y., Zhang, Y.Y., Zhou, Q., Hu, Q.
• Funding Organization(s): Other private

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.02 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., Zhang, 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 - D3  (Explore in 3D)
Global Stoichiometry: Hetero 12-mer - A6B6 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 832.14 kDa 
• Atom Count: 54,204 
• Modelled Residue Count: 7,050 
• Deposited Residue Count: 7,602 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Propionyl-CoA carboxylase alpha chain, mitochondrial	A, C, E, G, I, K	728	Homo sapiens	Mutation(s): 0  EC: 6.4.1.3
UniProt & NIH Common Fund Data Resources
Find proteins for P05165 (Homo sapiens) Explore P05165  Go to UniProtKB:  P05165
PHAROS:  P05165 GTEx:  ENSG00000175198

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Propionyl-CoA carboxylase beta chain, mitochondrial	B, D, F, H, J, L	539	Homo sapiens	Mutation(s): 0  EC: 6.4.1.3
UniProt & NIH Common Fund Data Resources
Find proteins for P05166 (Homo sapiens) Explore P05166  Go to UniProtKB:  P05166
PHAROS:  P05166 GTEx:  ENSG00000114054

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BTN (Subject of Investigation/LOI)	M [auth A], N [auth C], O [auth E], P [auth G], Q [auth I], R [auth K]	BIOTIN C10 H16 N2 O3 S YBJHBAHKTGYVGT-ZKWXMUAHSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.02 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-10-30 
Deposition Author(s): Zhou, F.Y., Zhang, Y.Y., Zhou, Q., Hu, Q.

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Funding Organization	Location	Grant Number
Other private		Westlake Education Foundation No. 101256021901

Revision History  

• Version 1.0: 2024-10-30
  Type: Initial release
  
• Version 1.1: 2024-11-20
  Changes: Data collection