3TYE

Dihydropteroate Synthase in complex with DHP-STZ


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.294 
  • R-Value Work: 0.254 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Catalysis and sulfa drug resistance in dihydropteroate synthase.

Yun, M.K.Wu, Y.Li, Z.Zhao, Y.Waddell, M.B.Ferreira, A.M.Lee, R.E.Bashford, D.White, S.W.

(2012) Science 335: 1110-1114

  • DOI: 10.1126/science.1214641
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The sulfonamide antibiotics inhibit dihydropteroate synthase (DHPS), a key enzyme in the folate pathway of bacteria and primitive eukaryotes. However, resistance mutations have severely compromised the usefulness of these drugs. We report structural, ...

    The sulfonamide antibiotics inhibit dihydropteroate synthase (DHPS), a key enzyme in the folate pathway of bacteria and primitive eukaryotes. However, resistance mutations have severely compromised the usefulness of these drugs. We report structural, computational, and mutagenesis studies on the catalytic and resistance mechanisms of DHPS. By performing the enzyme-catalyzed reaction in crystalline DHPS, we have structurally characterized key intermediates along the reaction pathway. Results support an S(N)1 reaction mechanism via formation of a novel cationic pterin intermediate. We also show that two conserved loops generate a substructure during catalysis that creates a specific binding pocket for p-aminobenzoic acid, one of the two DHPS substrates. This substructure, together with the pterin-binding pocket, explains the roles of the conserved active-site residues and reveals how sulfonamide resistance arises.


    Organizational Affiliation

    Department of Structural Biology, St. Jude Children's Research Hospital, Memphis, TN 38105, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Dihydropteroate synthase
A, B
297Bacillus anthracisMutation(s): 0 
Gene Names: folP
EC: 2.5.1.15
Find proteins for Q81VW8 (Bacillus anthracis)
Go to UniProtKB:  Q81VW8
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, B
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
XTZ
Query on XTZ

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Download CCD File 
A
4-{[(2-amino-4-oxo-3,4,7,8-tetrahydropteridin-6-yl)methyl]amino}-N-(1,3-thiazol-2-yl)benzenesulfonamide
C16 H16 N8 O3 S2
XKJZNFKQXDBJHJ-UHFFFAOYSA-N
 Ligand Interaction
YTZ
Query on YTZ

Download SDF File 
Download CCD File 
B
4-amino-N-(1,3-thiazol-2-yl)benzenesulfonamide
Sulfathiazole
C9 H9 N3 O2 S2
JNMRHUJNCSQMMB-UHFFFAOYSA-N
 Ligand Interaction
XHP
Query on XHP

Download SDF File 
Download CCD File 
B
2-amino-6-methylidene-6,7-dihydropteridin-4(3H)-one
C7 H7 N5 O
CHIXTMVYEYYHIG-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.294 
  • R-Value Work: 0.254 
  • Space Group: P 62 2 2
Unit Cell:
Length (Å)Angle (°)
a = 97.329α = 90.00
b = 97.329β = 90.00
c = 263.829γ = 120.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
SERGUIdata collection
HKL-2000data reduction
HKL-2000data scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2012-03-14
    Type: Initial release
  • Version 1.1: 2013-03-06
    Type: Non-polymer description