4BB9

Crystal structure of glucokinase regulatory protein complexed to fructose-1-phosphate

• PDB DOI: https://doi.org/10.2210/pdb4BB9/pdb

• Classification: PROTEIN-BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Trichoplusia ni
• Mutation(s): Yes 


• Deposited: 2012-09-21 Released: 2013-05-15 
• Deposition Author(s): Pautsch, A., Stadler, N., Loehle, A., Lenter, M., Rist, W., Berg, A., Glocker, L., Nar, H., Reinert, D., Heckel, A., Schnapp, G., Kauschke, S.G.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 0.177 
• R-Value Work: 0.160 
• R-Value Observed: 0.161 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 70.08 kDa 
• Atom Count: 5,363 
• Modelled Residue Count: 596 
• Deposited Residue Count: 633 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GLUCOKINASE REGULATORY PROTEIN	A	633	Homo sapiens	Mutation(s): 2
UniProt & NIH Common Fund Data Resources
Find proteins for Q14397 (Homo sapiens) Explore Q14397  Go to UniProtKB:  Q14397
PHAROS:  Q14397

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
F1P	B [auth A]	1-O-phosphono-beta-D-fructopyranose C6 H13 O9 P HXRNACQBNUPKDX-ARQDHWQXSA-N
CA	C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
F1P	PDBBind:  4BB9	Kd: 1000 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 0.177 
• R-Value Work: 0.160 
• R-Value Observed: 0.161 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.97	α = 90
b = 72.3	β = 90
c = 136.89	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
XSCALE	data scaling
autoSHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-05-15 
Deposition Author(s): Pautsch, A., Stadler, N., Loehle, A., Lenter, M., Rist, W., Berg, A., Glocker, L., Nar, H., Reinert, D., Heckel, A., Schnapp, G., Kauschke, S.G.

Revision History  

• Version 1.0: 2013-05-15
  Type: Initial release
  
• Version 1.1: 2013-08-28
  Changes: Database references
• Version 1.2: 2019-04-03
  Changes: Data collection, Other, Source and taxonomy
• Version 1.3: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Other, Structure summary