2FW3

Crystal structure of rat carnitine palmitoyltransferase 2 in complex with antidiabetic drug ST1326


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 
    0.296 (Depositor), 0.300 (DCC) 
  • R-Value Work: 
    0.241 (Depositor), 0.240 (DCC) 
  • R-Value Observed: 
    0.244 (Depositor) 

wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted BUIClick on this verticalbar to view details

This is version 1.4 of the entry. See complete history


Literature

The crystal structure of carnitine palmitoyltransferase 2 and implications for diabetes treatment

Rufer, A.C.Thoma, R.Benz, J.Stihle, M.Gsell, B.De Roo, E.Banner, D.W.Mueller, F.Chomienne, O.Hennig, M.

(2006) Structure 14: 713-723

  • DOI: https://doi.org/10.1016/j.str.2006.03.002
  • Primary Citation of Related Structures:  
    2DEB, 2FW3, 2FYO

  • PubMed Abstract: 

    Carnitine palmitoyltransferases (CPTs) are part of the enzymatic system that imports fatty acids into mitochondria. The crystal structure of rat CPT-2 by Rufer et al. (2006) (this issue of Structure) reveals a Y-shaped tunnel for binding the CoA and acyl-carnitine substrates and a hydrophobic insert mediating membrane association.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Carnitine O-palmitoyltransferase II, mitochondrial653Rattus norvegicusMutation(s): 0 
EC: 2.3.1.21
UniProt
Find proteins for P18886 (Rattus norvegicus)
Explore P18886 
Go to UniProtKB:  P18886
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP18886
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
BUI
Query on BUI

Download Ideal Coordinates CCD File 
B [auth A](3R)-3-{[(TETRADECYLAMINO)CARBONYL]AMINO}-4-(TRIMETHYLAMMONIO)BUTANOATE
C22 H45 N3 O3
BMZYTDRMCBZVNH-HXUWFJFHSA-N
Binding Affinity Annotations 
IDSourceBinding Affinity
BUI BindingDB:  2FW3 IC50: 380 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free:  0.296 (Depositor), 0.300 (DCC) 
  • R-Value Work:  0.241 (Depositor), 0.240 (DCC) 
  • R-Value Observed: 0.244 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 85.8α = 90
b = 96.2β = 90
c = 124.3γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
MAR345data collection
XDSdata scaling
AMoREphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 

Created with Raphaël 2.3.0Worse 01 BetterLigand structure goodness of fit to experimental dataBest fitted BUIClick on this verticalbar to view details

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-02-01
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-10-18
    Changes: Refinement description
  • Version 1.4: 2024-03-13
    Changes: Data collection, Database references, Derived calculations, Structure summary