5K55 | pdb_00005k55

Human muscle fructose-1,6-bisphosphatase E69Q mutant in active R-state in complex with fructose-6-phosphate

• PDB DOI: https://doi.org/10.2210/pdb5K55/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2016-05-23 Released: 2017-06-07 
• Deposition Author(s): Barciszewski, J., Wisniewski, J., Kolodziejczyk, R., Dzugaj, A., Jaskolski, M., Rakus, D.
• Funding Organization(s): Polish National Science Centre

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.98 Å
• R-Value Free: 
  0.235 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.185 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.188 (Depositor) 

Starting Model: experimental

Literature

Structural studies of human muscle FBPase

Barciszewski, J., Szpotkowski, K., Wisniewski, J., Kolodziejczyk, R., Jaskolski, M., Rakus, D., Dzugaj, A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 36.93 kDa 
• Atom Count: 2,300 
• Modeled Residue Count: 290 
• Deposited Residue Count: 338 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fructose-1,6-bisphosphatase isozyme 2	A	338	Homo sapiens	Mutation(s): 2  Gene Names: FBP2 EC: 3.1.3.11
UniProt & NIH Common Fund Data Resources
Find proteins for O00757 (Homo sapiens) Explore O00757  Go to UniProtKB:  O00757
PHAROS:  O00757 GTEx:  ENSG00000130957

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
F6P	B [auth A]	6-O-phosphono-beta-D-fructofuranose C6 H13 O9 P BGWGXPAPYGQALX-ARQDHWQXSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.98 Å
• R-Value Free:  0.235 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.185 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.188 (Depositor) 

Diffraction Data: https://doi.org/10.18150/repod.2931163

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.317	α = 90
b = 72.317	β = 90
c = 231.07	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-06-07 
Deposition Author(s): Barciszewski, J., Wisniewski, J., Kolodziejczyk, R., Dzugaj, A., Jaskolski, M., Rakus, D.

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Funding Organization	Location	Grant Number
Polish National Science Centre	Poland	2013/09/B/NZ1/01081

Revision History  

• Version 1.0: 2017-06-07
  Type: Initial release
  
• Version 1.1: 2018-08-08
  Changes: Data collection, Database references
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.3: 2024-01-10
  Changes: Data collection, Database references, Refinement description, Structure summary