4FQ9

Crystal Structure of 3-hydroxydecanoyl-Acyl Carrier Protein Dehydratase (FabA) from Pseudomonas aeruginosa


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.02 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.187 
  • R-Value Observed: 0.188 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Structural insights into the mechanism and inhibition of the beta-hydroxydecanoyl-acyl carrier protein dehydratase from Pseudomonas aeruginosa

Moynie, L.Leckie, S.M.McMahon, S.A.Duthie, F.G.Koehnke, A.Taylor, J.W.Alphey, M.S.Brenk, R.Smith, A.D.Naismith, J.H.

(2013) J Mol Biol 425: 365-377

  • DOI: 10.1016/j.jmb.2012.11.017
  • Primary Citation of Related Structures:  
    4FQ9, 4B0J, 4B0B, 4B0C, 4B0I, 4B8U

  • PubMed Abstract: 
  • Fatty acid biosynthesis is an essential component of metabolism in both eukaryotes and prokaryotes. The fatty acid biosynthetic pathway of Gram-negative bacteria is an established therapeutic target. Two homologous enzymes FabA and FabZ catalyze a key step in fatty acid biosynthesis; both dehydrate hydroxyacyl fatty acids that are coupled via a phosphopantetheine to an acyl carrier protein (ACP) ...

    Fatty acid biosynthesis is an essential component of metabolism in both eukaryotes and prokaryotes. The fatty acid biosynthetic pathway of Gram-negative bacteria is an established therapeutic target. Two homologous enzymes FabA and FabZ catalyze a key step in fatty acid biosynthesis; both dehydrate hydroxyacyl fatty acids that are coupled via a phosphopantetheine to an acyl carrier protein (ACP). The resulting trans-2-enoyl-ACP is further polymerized in a processive manner. FabA, however, carries out a second reaction involving isomerization of trans-2-enoyl fatty acid to cis-3-enoyl fatty acid. We have solved the structure of Pseudomonas aeruginosa FabA with a substrate allowing detailed molecular insight into the interactions of the active site. This has allowed a detailed examination of the factors governing the second catalytic step. We have also determined the structure of FabA in complex with small molecules (so-called fragments). These small molecules occupy distinct regions of the active site and form the basis for a rational inhibitor design program.


    Organizational Affiliation

    Biomedical Sciences Research Complex, The University, St. Andrews KY16 9ST, UK.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
3-hydroxydecanoyl-[acyl-carrier-protein] dehydratase
A, B, C, D, E, F, G, H
A, B, C, D, E, F, G, H, I, J
172Pseudomonas aeruginosa PAO1Mutation(s): 0 
Gene Names: fabAPA1610
EC: 4.2.1.60 (PDB Primary Data), 4.2.1.59 (UniProt), 5.3.3.14 (UniProt)
UniProt
Find proteins for O33877 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Explore O33877 
Go to UniProtKB:  O33877
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download Ideal Coordinates CCD File 
BA [auth H] , CA [auth I] , EA [auth J] , K [auth A] , L [auth A] , O [auth C] , R [auth D] , T [auth E] , 
BA [auth H],  CA [auth I],  EA [auth J],  K [auth A],  L [auth A],  O [auth C],  R [auth D],  T [auth E],  X [auth F],  Y [auth G]
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
GOL
Query on GOL

Download Ideal Coordinates CCD File 
AA [auth G] , DA [auth I] , FA [auth J] , M [auth A] , N [auth A] , P [auth C] , Q [auth C] , S [auth D] , 
AA [auth G],  DA [auth I],  FA [auth J],  M [auth A],  N [auth A],  P [auth C],  Q [auth C],  S [auth D],  U [auth E],  V [auth E],  W [auth E],  Z [auth G]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.02 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.187 
  • R-Value Observed: 0.188 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 146.79α = 90
b = 135.78β = 108.82
c = 111.01γ = 90
Software Package:
Software NamePurpose
SCALAdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
MxCuBEdata collection
XSCALEdata scaling

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-03-27
    Type: Initial release