4ALK

Crystal structure of S. aureus FabI in complex with NADP and 5-ethyl- 2-phenoxyphenol


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.150 
  • R-Value Observed: 0.152 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Staphylococcus Aureus Fabi: Inhibition, Substrate Recognition and Potential Implications for in Vivo Essentiality

Schiebel, J.Chang, A.Lu, H.Baxter, M.V.Tonge, P.J.Kisker, C.

(2012) Structure 20: 802

  • DOI: 10.1016/j.str.2012.03.013
  • Primary Citation of Related Structures:  
    4ALI, 4ALJ, 4ALK, 4ALL, 4ALM, 4ALN

  • PubMed Abstract: 
  • Methicillin-resistant Staphylococcus aureus (MRSA) infections constitute a serious health threat worldwide, and novel antibiotics are therefore urgently needed. The enoyl-ACP reductase (saFabI) is essential for the S. aureus fatty acid biosynthesis a ...

    Methicillin-resistant Staphylococcus aureus (MRSA) infections constitute a serious health threat worldwide, and novel antibiotics are therefore urgently needed. The enoyl-ACP reductase (saFabI) is essential for the S. aureus fatty acid biosynthesis and, hence, serves as an attractive drug target. We have obtained a series of snapshots of this enzyme that provide a mechanistic picture of ligand and inhibitor binding, including a dimer-tetramer transition combined with extensive conformational changes. Significantly, our results reveal key differences in ligand binding and recognition compared to orthologous proteins. The remarkable observed protein flexibility rationalizes our finding that saFabI is capable of efficiently reducing branched-chain fatty acid precursors. Importantly, branched-chain fatty acids represent a major fraction of the S. aureus cell membrane and are crucial for its in vivo fitness. Our discovery thus addresses a long-standing controversy regarding the essentiality of the fatty acid biosynthesis pathway in S. aureus rationalizing saFabI as a drug target.


    Organizational Affiliation

    Rudolf Virchow Center for Experimental Biomedicine, Institute for Structural Biology, University of Würzburg, D-97080 Würzburg, Germany.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ENOYL-[ACYL-CARRIER-PROTEIN] REDUCTASE [NADPH]ABCDEFGH282Staphylococcus aureusMutation(s): 1 
EC: 1.3.1.10 (PDB Primary Data), 1.3.1.39 (UniProt)
Find proteins for A0A0H3JLH9 (Staphylococcus aureus (strain N315))
Explore A0A0H3JLH9 
Go to UniProtKB:  A0A0H3JLH9
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAP
Query on NAP

Download CCD File 
A, B, C, D, E, F, G, H
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
C21 H28 N7 O17 P3
XJLXINKUBYWONI-NNYOXOHSSA-N
 Ligand Interaction
E9P
Query on E9P

Download CCD File 
A, B, C, D, E, F, G, H
5-ETHYL-2-PHENOXYPHENOL
C14 H14 O2
XZOPHRPAUNJURP-UHFFFAOYSA-N
 Ligand Interaction
GLU
Query on GLU

Download CCD File 
A, B, C, D, E, F, G
GLUTAMIC ACID
C5 H9 N O4
WHUUTDBJXJRKMK-VKHMYHEASA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
E9PKi:  33.599998474121094   nM  BindingDB
E9PKi:  0.20000000298023224   nM  BindingDB
E9PKi:  121   nM  BindingDB
E9PKi:  0.09000000357627869   nM  BindingDB
E9PKi:  32.20000076293945   nM  BindingDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.150 
  • R-Value Observed: 0.152 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 90.23α = 98.24
b = 95.14β = 112.27
c = 95.34γ = 97.27
Software Package:
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
SCALAdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-05-09
    Type: Initial release
  • Version 1.1: 2012-05-23
    Changes: Other