Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 204821.48 
• Atom Count: 14216 
• Residue Count: 1788 
• Unique protein chains: 1

2GVC

Crystal structure of flavin-containing monooxygenase (FMO)from S.pombe and substrate (methimazole) complex

• DOI: 10.2210/pdb2GVC/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Schizosaccharomyces pombe (strain 972 / ATCC 24843)
• Expression System: Escherichia coli


• Deposited: 2006-05-02 Released: 2006-06-06 
• Deposition Author(s): Eswaramoorthy, S., Swaminathan, S., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.22 Å
• R-Value Free: 0.265 
• R-Value Work: 0.230 

Literature

Mechanism of action of a flavin-containing monooxygenase.

Eswaramoorthy, S., Bonanno, J.B., Burley, S.K., Swaminathan, S.

(2006) Proc.Natl.Acad.Sci.Usa 103: 9832-9837

• PubMed: 16777962 
• DOI: 10.1073/pnas.0602398103
• Primary Citation of Related Structures:  
  2GV8, 1VQW


• PubMed Abstract: 
  

Elimination of nonnutritional and insoluble compounds is a critical task for any living organism. Flavin-containing monooxygenases (FMOs) attach an oxygen atom to the insoluble nucleophilic compounds to increase solubility and thereby increase excretion. Here we analyze the functional mechanism of FMO from Schizosaccharomyces pombe using the crystal structures of the wild type and protein-cofactor and protein-substrate complexes. The structure of the wild-type FMO revealed that the prosthetic group FAD is an integral part of the protein. FMO needs NADPH as a cofactor in addition to the prosthetic group for its catalytic activity. Structures of the protein-cofactor and protein-substrate complexes provide insights into mechanism of action. We propose that FMOs exist in the cell as a complex with a reduced form of the prosthetic group and NADPH cofactor, readying them to act on substrates. The 4alpha-hydroperoxyflavin form of the prosthetic group represents a transient intermediate of the monooxygenation process. The oxygenated and reduced forms of the prosthetic group help stabilize interactions with cofactor and substrate alternately to permit continuous enzyme turnover.

---

Organizational Affiliation: 

Biology Department, Brookhaven National Laboratory, Upton, NY 11973, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
monooxygenase	A, B, D, E	447	Schizosaccharomyces pombe (strain 972 / ATCC 24843)	Mutation(s): 0  Gene Names: fmo1 EC: 1.14.13.-
Find proteins for Q9HFE4 (Schizosaccharomyces pombe (strain 972 / ATCC 24843)) Go to UniProtKB:  Q9HFE4

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
MMZ	A, B, D, E	1-METHYL-1,3-DIHYDRO-2H-IMIDAZOLE-2-THIONE METHIMAZOLE C4 H6 N2 S PMRYVIKBURPHAH-UHFFFAOYSA-N
FAD	A, B, D, E	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N
GOL	A, B, D, E	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
PEO	A, B, D, E	HYDROGEN PEROXIDE H2 O2 MHAJPDPJQMAIIY-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, D, E	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.22 Å
• R-Value Free: 0.265 
• R-Value Work: 0.230 
• Space Group: P 1

Unit Cell:

Length (Å)	Angle (°)
a = 72.700	α = 107.73
b = 84.450	β = 90.76
c = 113.510	γ = 106.50

Software Package:

Software Name	Purpose
CNS	refinement
MOLREP	phasing
CBASS	data collection
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-05-02 
• Released Date: 2006-06-06 
• Deposition Author(s): Eswaramoorthy, S., Swaminathan, S., Burley, S.K., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History 

• Version 1.0: 2006-06-06
  Type: Initial release
• Version 1.1: 2008-05-01
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Non-polymer description, Version format compliance