3DHI

Crystal Structure of Reduced Toluene 4-Monoxygenase Hydroxylase Complexed with Effector Protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.68 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.167 
  • R-Value Observed: 0.169 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Structural consequences of effector protein complex formation in a diiron hydroxylase.

Bailey, L.J.McCoy, J.G.Phillips Jr., G.N.Fox, B.G.

(2008) Proc Natl Acad Sci U S A 105: 19194-19198

  • DOI: https://doi.org/10.1073/pnas.0807948105
  • Primary Citation of Related Structures:  
    3DHG, 3DHH, 3DHI

  • PubMed Abstract: 

    Carboxylate-bridged diiron hydroxylases are multicomponent enzyme complexes responsible for the catabolism of a wide range of hydrocarbons and as such have drawn attention for their mechanism of action and potential uses in bioremediation and enzymatic synthesis. These enzyme complexes use a small molecular weight effector protein to modulate the function of the hydroxylase. However, the origin of these functional changes is poorly understood. Here, we report the structures of the biologically relevant effector protein-hydroxylase complex of toluene 4-monooxygenase in 2 redox states. The structures reveal a number of coordinated changes that occur up to 25 A from the active site and poise the diiron center for catalysis. The results provide a structural basis for the changes observed in a number of the measurable properties associated with effector protein binding. This description provides insight into the functional role of effector protein binding in all carboxylate-bridged diiron hydroxylases.


  • Organizational Affiliation

    Department of Biochemistry, University of Wisconsin, 433 Babcock Drive, Madison, WI 53706-1544, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
toluene 4-monooxygenase hydroxylase alpha subunit500Ectopseudomonas mendocinaMutation(s): 0 
Gene Names: tmoA
EC: 1.14.13.236
UniProt
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Go to UniProtKB:  Q00456
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UniProt GroupQ00456
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
toluene 4-monooxygenase hydroxylase beta subunit327Ectopseudomonas mendocinaMutation(s): 0 
Gene Names: tmoE
EC: 1.14.13.236
UniProt
Find proteins for Q00460 (Pseudomonas mendocina)
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UniProt GroupQ00460
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
toluene 4-monooxygenase hydroxylase gamma subunit84Ectopseudomonas mendocinaMutation(s): 0 
Gene Names: tmoB
EC: 1.14.13 (PDB Primary Data), 1.14.13.236 (UniProt)
UniProt
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Toluene-4-monooxygenase system effector proteinD [auth E]103Ectopseudomonas mendocinaMutation(s): 0 
Gene Names: tmoD
EC: 1.14.13
UniProt
Find proteins for Q00459 (Pseudomonas mendocina)
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UniProt GroupQ00459
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
1PE
Query on 1PE

Download Ideal Coordinates CCD File 
H [auth A],
I [auth B]
PENTAETHYLENE GLYCOL
C10 H22 O6
JLFNLZLINWHATN-UHFFFAOYSA-N
BTB
Query on BTB

Download Ideal Coordinates CCD File 
J [auth C]2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
C8 H19 N O5
OWMVSZAMULFTJU-UHFFFAOYSA-N
ACT
Query on ACT

Download Ideal Coordinates CCD File 
G [auth A]ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
FE
Query on FE

Download Ideal Coordinates CCD File 
E [auth A],
F [auth A]
FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.68 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.167 
  • R-Value Observed: 0.169 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 97.661α = 90
b = 115.295β = 90
c = 180.823γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-12-30
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.2: 2013-01-30
    Changes: Structure summary
  • Version 1.3: 2017-10-25
    Changes: Refinement description
  • Version 1.4: 2024-02-21
    Changes: Data collection, Database references, Derived calculations