3DHH

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.94 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.157 
  • R-Value Observed: 0.159 

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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 subunit500Pseudomonas mendocinaMutation(s): 0 
Gene Names: tmoA
UniProt
Find proteins for Q00456 (Pseudomonas mendocina)
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Go to UniProtKB:  Q00456
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ00456
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
toluene 4-monooxygenase hydroxylase beta subunit327Pseudomonas mendocinaMutation(s): 0 
Gene Names: tmoE
UniProt
Find proteins for Q00460 (Pseudomonas mendocina)
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Go to UniProtKB:  Q00460
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UniProt GroupQ00460
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
toluene 4-monooxygenase hydroxylase gamma subunit84Pseudomonas mendocinaMutation(s): 0 
Gene Names: tmoB
EC: 1.14.13
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]103Pseudomonas mendocinaMutation(s): 0 
Gene Names: tmoD
EC: 1.14.13
UniProt
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UniProt GroupQ00459
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  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
1PE
Query on 1PE

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

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L [auth A]2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
C8 H19 N O5
OWMVSZAMULFTJU-UHFFFAOYSA-N
BML
Query on BML

Download Ideal Coordinates CCD File 
G [auth A],
H [auth A],
K [auth A],
M [auth B],
N [auth E]
4-BROMOPHENOL
C6 H5 Br O
GZFGOTFRPZRKDS-UHFFFAOYSA-N
FE
Query on FE

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E [auth A],
F [auth A]
FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
CL
Query on CL

Download Ideal Coordinates CCD File 
J [auth A]CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.94 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.157 
  • R-Value Observed: 0.159 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 100.418α = 90
b = 115.613β = 90
c = 182.403γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction

Structure Validation

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Ligand Structure Quality Assessment 


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: Version format compliance
  • Version 1.2: 2013-01-30
    Changes: Structure summary
  • Version 1.3: 2017-10-25
    Changes: Advisory, Refinement description
  • Version 1.4: 2024-02-21
    Changes: Advisory, Data collection, Database references, Derived calculations