6P2D

Structure of mouse ketohexokinase-C in complex with fructose and ADP

• PDB DOI: https://doi.org/10.2210/pdb6P2D/pdb

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


• Deposited: 2019-05-21 Released: 2020-06-03 
• Deposition Author(s): Gasper, W.C., Allen, K.N., Tolan, D.R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 0.220 
• R-Value Work: 0.174 
• R-Value Observed: 0.178 

Literature

First Crystal Structure of Mouse Ketohexokinase-C (KHK-C) Confirms Structural Similarity to Human KHK-C and Suggests Alternate Confirmation May Be Linked to Catalysis

Gasper, W.C., Gardner, S., Ross, A., Allen, K.N., Tolan, D.R.

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 PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 35.43 kDa 
• Atom Count: 2,731 
• Modelled Residue Count: 296 
• Deposited Residue Count: 315 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ketohexokinase	A	315	Mus musculus	Mutation(s): 0  Gene Names: Khk, mCG_23498
UniProt
Find proteins for P97328 (Mus musculus) Explore P97328  Go to UniProtKB:  P97328

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	C [auth A]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
FRU (Subject of Investigation/LOI)	B [auth A]	beta-D-fructofuranose C6 H12 O6 RFSUNEUAIZKAJO-ARQDHWQXSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 0.220 
• R-Value Work: 0.174 
• R-Value Observed: 0.178 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.252	α = 90
b = 78.446	β = 90
c = 150.772	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
SADABS	data scaling
PDB_EXTRACT	data extraction
SAINT	data reduction
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-06-03 
Deposition Author(s): Gasper, W.C., Allen, K.N., Tolan, D.R.

Revision History  

• Version 1.0: 2020-06-03
  Type: Initial release
  
• Version 1.1: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.2: 2023-10-11
  Changes: Data collection, Database references, Refinement description, Structure summary