8ZPI | pdb_00008zpi

The cryoEM structure of a daminobutyrate--2-oxoglutarate transaminase EctB

• PDB DOI: https://doi.org/10.2210/pdb8ZPI/pdb
• EM Map EMD-60345: EMDB EMDataResource

• Classification: TRANSFERASE
• Organism(s): Saccharococcus caldoxylosilyticus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-05-30 Released: 2025-06-04 
• Deposition Author(s): Jiang, W.X., Cheng, X.Q., Ma, L.X., Xing, Q.
• Funding Organization(s): National Basic Research Program of China (973 Program)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.12 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

The cryoEM structure of a daminobutyrate--2-oxoglutarate transaminase EctB

Jiang, W.X., Cheng, X.Q., Ma, L.X., Xing, Q.

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 and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 108.93 kDa 
• Atom Count: 7,649 
• Modeled Residue Count: 962 
• Deposited Residue Count: 962 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Diaminobutyrate-2-oxoglutarate transaminase	A, B	481	Saccharococcus caldoxylosilyticus	Mutation(s): 0  Gene Names: B4119_1990 EC: 2.6.1.76
UniProt
Find proteins for A0A150LFB8 (Saccharococcus caldoxylosilyticus) Explore A0A150LFB8  Go to UniProtKB:  A0A150LFB8

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.12 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-06-04 
Deposition Author(s): Jiang, W.X., Cheng, X.Q., Ma, L.X., Xing, Q.

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Funding Organization	Location	Grant Number
National Basic Research Program of China (973 Program)	China	2021YFC2100100

Revision History  

• Version 1.0: 2025-06-04
  Type: Initial release