3E2F

Crystal structure of mouse kynurenine aminotransferase III, PLP-bound form

• PDB DOI: https://doi.org/10.2210/pdb3E2F/pdb

• Classification: TRANSFERASE, LYASE
• Organism(s): Mus musculus
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2008-08-05 Released: 2008-12-30 
• Deposition Author(s): Han, Q., Robinson, R., Cai, T., Tagle, D.A., Li, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.59 Å
• R-Value Free: 0.246 
• R-Value Work: 0.193 
• R-Value Observed: 0.196 

Starting Model: experimental

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 5VEP

Literature

Correction for Han et al., "Biochemical and Structural Properties of Mouse Kynurenine Aminotransferase III".

Han, Q., Robinson, H., Cai, T., Tagle, D.A., Li, J.

(2018) Mol Cell Biol 38

• PubMed: 29712768 
• DOI: https://doi.org/10.1128/MCB.00099-18
• Primary Citation of Related Structures:  
  3E2F, 3E2Y, 3E2Z

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Organizational Affiliation: 

Department of Biochemistry, Virginia Tech, Blacksburg, Virginia 24061.

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 PISA (software)

Macromolecule Content

• Total Structure Weight: 93.83 kDa 
• Atom Count: 6,736 
• Modelled Residue Count: 820 
• Deposited Residue Count: 820 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Kynurenine-oxoglutarate transaminase 3	A, B	410	Mus musculus	Mutation(s): 0  Gene Names: Ccbl2, Kat3 EC: 2.6.1.7 (PDB Primary Data), 4.4.1.13 (PDB Primary Data), 2.6.1.63 (UniProt)
UniProt
Find proteins for Q71RI9 (Mus musculus) Explore Q71RI9  Go to UniProtKB:  Q71RI9

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth B], J [auth B], K [auth B], L [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
LLP	A, B	L-PEPTIDE LINKING	C14 H22 N3 O7 P		LYS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.59 Å
• R-Value Free: 0.246 
• R-Value Work: 0.193 
• R-Value Observed: 0.196 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 91.82	α = 90
b = 91.82	β = 90
c = 233.649	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data collection
DENZO	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-12-30 
Deposition Author(s): Han, Q., Robinson, R., Cai, T., Tagle, D.A., Li, J.

Revision History  

• Version 1.0: 2008-12-30
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.2: 2018-08-01
  Changes: Data collection, Database references
• Version 1.3: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.4: 2023-11-15
  Changes: Data collection