9UEQ | pdb_00009ueq

Cryo-EM structure of the CT-PT-BCCP domain of pyruvate carboxylase from Mycobacterium tuberculosis

• PDB DOI: https://doi.org/10.2210/pdb9UEQ/pdb
• EM Map EMD-64089: EMDB EMDataResource

• Classification: LIGASE
• Organism(s): Mycobacterium tuberculosis H37Rv
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2025-04-09 Released: 2025-05-14 
• Deposition Author(s): Singh, A., Raza, M., Singh, S., Das, U.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.20 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: in silico

Literature

Cryo-EM structure of Pyruvate carboxylase from Mycobacterium tuberculosis in complex with Acetyl-CoA and ADP

Singh, A., Raza, M., Singh, S., Das, U.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 143.66 kDa 
• Atom Count: 10,039 
• Modeled Residue Count: 1,342 
• Deposited Residue Count: 1,342 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pyruvate carboxylase	A, B	671	Mycobacterium tuberculosis H37Rv	Mutation(s): 0  Gene Names: pca, Rv2967c EC: 6.4.1.1
UniProt
Find proteins for I6YEU0 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore I6YEU0  Go to UniProtKB:  I6YEU0

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.20 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC	4.6.2

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-05-14 
Deposition Author(s): Singh, A., Raza, M., Singh, S., Das, U.

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Funding Organization	Location	Grant Number
Not funded	India	--

Revision History  

• Version 1.0: 2025-05-14
  Type: Initial release
  
• Version 2.0: 2025-11-12
  Type: Coordinate replacement
  Reason: Ligand identity
  Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations, Non-polymer description, Polymer sequence, Refinement description, Source and taxonomy, Structure summary