1KN3 | pdb_00001kn3

Murine PEBP-2 (phosphatidylethanolamine-binding protein-2)

• PDB DOI: https://doi.org/10.2210/pdb1KN3/pdb

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


• Deposited: 2001-12-18 Released: 2002-06-12 
• Deposition Author(s): Simister, P.C., Banfield, M.J., Brady, R.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.267 (Depositor), 0.266 (DCC) 
• R-Value Work: 
  0.210 (Depositor), 0.215 (DCC) 
• R-Value Observed: 
  0.213 (Depositor) 

Starting Model: experimental

Literature

The crystal structure of PEBP-2, a homologue of the PEBP/RKIP family.

Simister, P.C., Banfield, M.J., Brady, R.L.

(2002) Acta Crystallogr D Biol Crystallogr 58: 1077-1080

• PubMed: 12037323 
• DOI: https://doi.org/10.1107/s090744490200522x
• Primary Citation Related Structures: 
  1KN3


• PubMed Abstract: 
  

  Proteins from the PEBP (phosphatidylethanolamine-binding protein) family have been identified in a wide variety of species and are thought to regulate a range of intracellular signalling cascades. The rat homologue (known as RKIP; Raf-1 kinase inhibitor protein) has been shown to negatively regulate the MAP kinase pathway through formation of inhibitory complexes with Raf-1 and MEK. The crystal structure of a new, murine member of the PEBP family, termed mPEBP-2, has been determined. On the basis of amino-acid homology, mPEBP-2 belongs to a distinct subset of the mammalian PEBP proteins. Nonetheless, mPEBP-2 is seen to be very similar in structure to other PEBP proteins from human, bovine and plant sources. Regions of distinctive sequence associated with the PEBP-2 subset are discussed with reference to this structure.

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Organizational Affiliation: 
• Department of Biochemistry, University of Bristol, Bristol BS8 1TD, England.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 20.78 kDa 
• Atom Count: 1,574 
• Modeled Residue Count: 180 
• Deposited Residue Count: 183 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphatidylethanolamine Binding Protein-2	A	183	Mus musculus	Mutation(s): 0  Gene Names: pebp-2
UniProt
Find proteins for Q8VIN1 (Mus musculus) Explore Q8VIN1  Go to UniProtKB:  Q8VIN1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.267 (Depositor), 0.266 (DCC) 
• R-Value Work:  0.210 (Depositor), 0.215 (DCC) 
• R-Value Observed: 0.213 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.816	α = 90
b = 51.401	β = 90
c = 79.765	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-06-12 
Deposition Author(s): Simister, P.C., Banfield, M.J., Brady, R.L.

Revision History  

• Version 1.0: 2002-06-12
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.3: 2023-08-16
  Changes: Data collection, Database references, Refinement description