Biological Assembly 1  

 3D View: Structure

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 94.90 kDa 
• Atom Count: 5301 
• Modelled Residue Count: 644 
• Deposited Residue Count: 832 
• Unique protein chains: 1

1BO1

PHOSPHATIDYLINOSITOL PHOSPHATE KINASE TYPE II BETA

• DOI: 10.2210/pdb1BO1/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1998-08-02 Released: 1998-10-07 
• Deposition Author(s): Rao, V.D., Misra, S., Boronenkov, I.V., Anderson, R.A., Hurley, J.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.299 
• R-Value Work: 0.229 
• R-Value Observed: 0.229 

Literature

Structure of type IIbeta phosphatidylinositol phosphate kinase: a protein kinase fold flattened for interfacial phosphorylation.

Rao, V.D., Misra, S., Boronenkov, I.V., Anderson, R.A., Hurley, J.H.

(1998) Cell 94: 829-839

• PubMed: 9753329 
• DOI: 10.1016/s0092-8674(00)81741-9
• Primary Citation of Related Structures:  
  1BO1


• PubMed Abstract: 
  

Phosphoinositide kinases play central roles in signal transduction by phosphorylating the inositol ring at specific positions. The structure of one such enzyme, type IIbeta phosphatidylinositol phosphate kinase, reveals a protein kinase ATP-binding core and demonstrates that all phosphoinositide kinases belong to one superfamily. The enzyme is a disc-shaped homodimer with a 33 x 48 A basic flat face that suggests an electrostatic mechanism for plasma membrane targeting. Conserved basic residues form a putative phosphatidylinositol phosphate specificity site. The substrate-binding site is open on one side, consistent with dual specificity for phosphatidylinositol 3- and 5-phosphates. A modeled complex with membrane-bound substrate and ATP shows how a phosphoinositide kinase can phosphorylate its substrate in situ at the membrane interface.

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Organizational Affiliation: 

Laboratory of Molecular Biology, National Institute of Diabetes, Digestive and Kidney Diseases, National Institutes of Health, Bethesda, Maryland 20892-0580, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (PHOSPHATIDYLINOSITOL PHOSPHATE KINASE IIBETA)	A, B	416	Homo sapiens	Mutation(s): 0  Gene Names: PIP4K2B, PIP5K2B EC: 2.7.1.68 (PDB Primary Data), 2.7.1.149 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P78356 (Homo sapiens) Explore P78356  Go to UniProtKB:  P78356
PHAROS:  P78356 GTEx:  ENSG00000276293

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 0.299 
• R-Value Work: 0.229 
• R-Value Observed: 0.229 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 109.915	α = 90
b = 182.403	β = 90
c = 106.472	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1998-08-02 
• Released Date: 1998-10-07 
Deposition Author(s): Rao, V.D., Misra, S., Boronenkov, I.V., Anderson, R.A., Hurley, J.H.

Revision History  

• Version 1.0: 1998-10-07
  Type: Initial release
  
• Version 1.1: 2007-10-16
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance