1T3Q

Crystal structure of quinoline 2-Oxidoreductase from Pseudomonas Putida 86


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.186 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Active site geometry and substrate recognition of the molybdenum hydroxylase quinoline 2-oxidoreductase.

Bonin, I.Martins, B.M.Purvanov, V.Fetzner, S.Huber, R.Dobbek, H.

(2004) STRUCTURE 12: 1425-1435

  • DOI: 10.1016/j.str.2004.05.014

  • PubMed Abstract: 
  • The soil bacterium Pseudomonas putida 86 uses quinoline as a sole source of carbon and energy. Quinoline 2-oxidoreductase (Qor) catalyzes the first metabolic step converting quinoline to 2-oxo-1,2-dihydroquinoline. Qor is a member of the molybdenum h ...

    The soil bacterium Pseudomonas putida 86 uses quinoline as a sole source of carbon and energy. Quinoline 2-oxidoreductase (Qor) catalyzes the first metabolic step converting quinoline to 2-oxo-1,2-dihydroquinoline. Qor is a member of the molybdenum hydroxylases. The molybdenum ion is coordinated by two ene-dithiolate sulfur atoms, two oxo-ligands, and a catalytically crucial sulfido-ligand, whose position in the active site was controversial. The 1.8 A resolution crystal structure of Qor indicates that the sulfido-ligand occupies the equatorial position at the molybdenum ion. The structural comparison of Qor with the allopurinol-inhibited xanthine dehydrogenase from Rhodobacter capsulatus allows direct insight into the mechanism of substrate recognition and the identification of putative catalytic residues. The active site protein variants QorE743V and QorE743D were analyzed to assess the catalytic role of E743.


    Organizational Affiliation

    Abteilung für Strukturforschung, Max-Planck-Institut für Biochemie, 82152 Martinsried, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
quinoline 2-oxidoreductase small subunit
A, D
168Pseudomonas putidaGene Names: qorS
Find proteins for P72223 (Pseudomonas putida)
Go to UniProtKB:  P72223
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
quinoline 2-oxidoreductase large subunit
B, E
788Pseudomonas putidaGene Names: qorL
Find proteins for P72224 (Pseudomonas putida)
Go to UniProtKB:  P72224
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
quinoline 2-oxidoreductase medium subunit
C, F
288Pseudomonas putidaGene Names: qorM
Find proteins for P72222 (Pseudomonas putida)
Go to UniProtKB:  P72222
Small Molecules
Ligands 6 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

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

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Download CCD File 
B, E
PTERIN CYTOSINE DINUCLEOTIDE
C19 H22 N8 O13 P2 S2
RBWYFPNWTRZKKZ-LOIMWUFNSA-N
 Ligand Interaction
FAD
Query on FAD

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Download CCD File 
C, F
FLAVIN-ADENINE DINUCLEOTIDE
C27 H33 N9 O15 P2
VWWQXMAJTJZDQX-UYBVJOGSSA-N
 Ligand Interaction
GOL
Query on GOL

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Download CCD File 
A, B, C, E, F
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
FES
Query on FES

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Download CCD File 
A, D
FE2/S2 (INORGANIC) CLUSTER
Fe2 S2
NIXDOXVAJZFRNF-UHFFFAOYSA-N
 Ligand Interaction
SMO
Query on SMO

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Download CCD File 
B, E
DIOXOSULFIDOMOLYBDENUM(VI) ION
Mo O2 S
BSDYLDOYZVCHEU-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.207 
  • R-Value Work: 0.186 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 278.320α = 90.00
b = 72.100β = 127.98
c = 202.650γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
AMoREphasing
XDSdata scaling
MAR345data collection
CNSrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-09-14
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Non-polymer description, Version format compliance
  • Version 1.3: 2017-10-11
    Type: Advisory, Refinement description