2I7N

Crystal structure of human PANK1 alpha: the catalytic core domain in complex with AcCoA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.222 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structures of human pantothenate kinases. Insights into allosteric regulation and mutations linked to a neurodegeneration disorder.

Hong, B.S.Senisterra, G.Rabeh, W.M.Vedadi, M.Leonardi, R.Zhang, Y.M.Rock, C.O.Jackowski, S.Park, H.W.

(2007) J.Biol.Chem. 282: 27984-27993

  • DOI: 10.1074/jbc.M701915200
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Pantothenate kinase (PanK) catalyzes the first step in CoA biosynthesis and there are three human genes that express four isoforms with highly conserved catalytic core domains. Here we report the homodimeric structures of the catalytic cores of PanK1 ...

    Pantothenate kinase (PanK) catalyzes the first step in CoA biosynthesis and there are three human genes that express four isoforms with highly conserved catalytic core domains. Here we report the homodimeric structures of the catalytic cores of PanK1alpha and PanK3 in complex with acetyl-CoA, a feedback inhibitor. Each monomer adopts a fold of the actin kinase superfamily and the inhibitor-bound structures explain the basis for the allosteric regulation by CoA thioesters. These structures also provide an opportunity to investigate the structural effects of the PanK2 mutations that have been implicated in neurodegeneration. Biochemical and thermodynamic analyses of the PanK3 mutant proteins corresponding to PanK2 mutations show that mutant proteins with compromised activities and/or stabilities correlate with a higher incidence of the early onset of disease.


    Organizational Affiliation

    Structural Genomics Consortium and Department of Pharmacology, University of Toronto, Toronto, Ontario M5G 1L5, Canada.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Pantothenate kinase 1
A, B
360Homo sapiensMutation(s): 0 
Gene Names: PANK1 (PANK)
EC: 2.7.1.33
Find proteins for Q8TE04 (Homo sapiens)
Go to Gene View: PANK1
Go to UniProtKB:  Q8TE04
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ACO
Query on ACO

Download SDF File 
Download CCD File 
A, B
ACETYL COENZYME *A
C23 H38 N7 O17 P3 S
ZSLZBFCDCINBPY-ZSJPKINUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.243 
  • R-Value Work: 0.222 
  • Space Group: P 63
Unit Cell:
Length (Å)Angle (°)
a = 92.989α = 90.00
b = 92.989β = 90.00
c = 197.782γ = 120.00
Software Package:
Software NamePurpose
CNSrefinement
MOLREPphasing
CNSphasing
HKL-2000data collection
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-12-26
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance