8ZXB | pdb_00008zxb

Structure of aminotransferase from Mycolicibacterium neoaurum in complex with PLP

• PDB DOI: https://doi.org/10.2210/pdb8ZXB/pdb

• Classification: TRANSFERASE
• Organism(s): Mycolicibacterium neoaurum
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2024-06-14 Released: 2025-06-18 
• Deposition Author(s): Wei, H., Cong, L., Wang, J., You, S., Liu, W.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free: 
  0.203 (Depositor), 0.206 (DCC) 
• R-Value Work: 
  0.171 (Depositor), 0.175 (DCC) 
• R-Value Observed: 
  0.172 (Depositor) 

Starting Model: in silico

Literature

Structure of aminotransferase from Mycolicibacterium neoaurum in complex with PLP

Wei, H., Cong, L., Wang, J., You, S., Liu, W.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 4 assigned by authors.

Biological Assembly 5  

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

Biological assembly 5 generated by PISA (software)

Biological Assembly 6  

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

Biological assembly 6 generated by PISA (software)

Biological Assembly 7  

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

Biological assembly 7 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 143.83 kDa 
• Atom Count: 10,972 
• Modeled Residue Count: 1,236 
• Deposited Residue Count: 1,304 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Branched-chain amino acid aminotransferase	A, B, C, D	326	Mycolicibacterium neoaurum	Mutation(s): 0  Gene Names: SAMN04488581_1910
UniProt
Find proteins for A0AAV2WF13 (Mycolicibacterium neoaurum) Explore A0AAV2WF13  Go to UniProtKB:  A0AAV2WF13

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PLP (Subject of Investigation/LOI)	E [auth A], F [auth B], G [auth C], H [auth D]	PYRIDOXAL-5'-PHOSPHATE C8 H10 N O6 P NGVDGCNFYWLIFO-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.75 Å
• R-Value Free:  0.203 (Depositor), 0.206 (DCC) 
• R-Value Work:  0.171 (Depositor), 0.175 (DCC) 
• R-Value Observed: 0.172 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.08	α = 96.92
b = 79.08	β = 108.47
c = 91.98	γ = 113.09

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-06-18 
Deposition Author(s): Wei, H., Cong, L., Wang, J., You, S., Liu, W.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2025-06-18
  Type: Initial release