9KS0 | pdb_00009ks0

E. coli MaeB PTA domain apo form

• PDB DOI: https://doi.org/10.2210/pdb9KS0/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-11-29 Released: 2025-12-03 
• Deposition Author(s): Sassa, M., Yamato, H., Tanino, H., Fukuda, Y., Inoue, T.
• Funding Organization(s): Japan Society for the Promotion of Science (JSPS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.259 (Depositor), 0.254 (DCC) 
• R-Value Work: 
  0.214 (Depositor), 0.214 (DCC) 

Starting Model: experimental

Literature

E. coli MaeB PTA domain apo form

Sassa, M., Yamato, H., Tanino, H., Fukuda, Y., Inoue, T.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 244.95 kDa 
• Atom Count: 15,580 
• Modeled Residue Count: 2,002 
• Deposited Residue Count: 2,232 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NADP-dependent malic enzyme	A [auth E], B [auth F], C [auth G], D [auth H], E [auth I]	372	Escherichia coli K-12	Mutation(s): 0  Gene Names: maeB, ypfF, b2463, JW2447 EC: 1.1.1.40
UniProt
Find proteins for P76558 (Escherichia coli (strain K12)) Explore P76558  Go to UniProtKB:  P76558

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
NADP-dependent malic enzyme	F [auth J]	372	Escherichia coli K-12	Mutation(s): 0  Gene Names: maeB, ypfF, b2463, JW2447 EC: 1.1.1.40
UniProt
Find proteins for P76558 (Escherichia coli (strain K12)) Explore P76558  Go to UniProtKB:  P76558

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4 (Subject of Investigation/LOI)	G [auth E], H [auth I]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSO	F [auth J]	L-PEPTIDE LINKING	C3 H7 N O3 S		CYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.259 (Depositor), 0.254 (DCC) 
• R-Value Work:  0.214 (Depositor), 0.214 (DCC) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 108.066	α = 90
b = 130.026	β = 90
c = 169.981	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-12-03 
Deposition Author(s): Sassa, M., Yamato, H., Tanino, H., Fukuda, Y., Inoue, T.

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Funding Organization	Location	Grant Number
Japan Society for the Promotion of Science (JSPS)	Japan	--

Revision History  

• Version 1.0: 2025-12-03
  Type: Initial release