2AR8 | pdb_00002ar8

The structure of tryptophan 7-halogenase (PrnA)suggests a mechanism for regioselective chlorination

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 
    0.217 (Depositor), 0.239 (DCC) 
  • R-Value Work: 
    0.172 (Depositor) 
  • R-Value Observed: 
    0.173 (Depositor) 

Starting Model: experimental
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Literature

Tryptophan 7-halogenase (PrnA) structure suggests a mechanism for regioselective chlorination.

Dong, C., Flecks, S., Unversucht, S., Haupt, C., van Pee, K.H., Naismith, J.H.

(2005) Science 309: 2216-2219

  • DOI: https://doi.org/10.1126/science.1116510
  • Primary Citation Related Structures: 
    2APG, 2AQJ, 2AR8, 2ARD

  • PubMed Abstract: 

    Chlorinated natural products include vancomycin and cryptophycin A. Their biosynthesis involves regioselective chlorination by flavin-dependent halogenases. We report the structural characterization of tryptophan 7-halogenase (PrnA), which regioselectively chlorinates tryptophan. Tryptophan and flavin adenine dinucleotide (FAD) are separated by a 10 angstrom-long tunnel and bound by distinct enzyme modules. The FAD module is conserved in halogenases and is related to flavin-dependent monooxygenases. On the basis of biochemical studies, crystal structures, and by analogy with monooxygenases, we predict that FADH2 reacts with O2 to make peroxyflavin, which is decomposed by Cl-. The resulting HOCl is guided through the tunnel to tryptophan, where it is activated to participate in electrophilic aromatic substitution.

    • Organizational Affiliation: 
    • Centre for Biomolecular Sciences, EaStchem, University of St. Andrews, St. Andrews KY16 9ST, UK.

Macromolecule Content 

  • Total Structure Weight: 62.21 kDa 
  • Atom Count: 4,458 
  • Modeled Residue Count: 517 
  • Deposited Residue Count: 538 
  • Unique protein chains: 1

Macromolecules

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|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
tryptophan halogenase PrnA538Pseudomonas fluorescensMutation(s): 0 
Gene Names: PrnA
EC: 1.14.19.9
UniProt
Find proteins for P95480 (Pseudomonas fluorescens)
Explore P95480 
Go to UniProtKB:  P95480
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP95480
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free:  0.217 (Depositor), 0.239 (DCC) 
  • R-Value Work:  0.172 (Depositor) 
  • R-Value Observed: 0.173 (Depositor) 
Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 67.128α = 90
b = 67.128β = 90
c = 275.702γ = 90
Software Package:
Software NamePurpose
SCALAdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
MOSFLMdata reduction
CCP4data scaling
MOLREPphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2005-10-04
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Advisory, Version format compliance
  • Version 1.3: 2023-08-23
    Changes: Data collection, Database references, Derived calculations, Refinement description
  • Version 1.4: 2023-11-15
    Changes: Data collection