3Q9T

Crystal structure analysis of formate oxidase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.24 Å
  • R-Value Free: 0.236
  • R-Value Work: 0.184

Literature

Macromolecules
Sequence Display for 3Q9T

Classification: OXIDOREDUCTASE

Total Structure Weight: 195868.55

Macromolecule Entities
Molecule Chains Length Organism Details
Choline dehydrogenase and related flavoproteins A, B, C 577 Aspergillus oryzae Gene Name(s): AO090012000349
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FAY
Query on FAY

A, B, C [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)- 3,4-dihydroxytetrahydrofuran-2-yl]methyl (2R,3S,4S)- 5-(8-formyl-7-methyl-2,4-dioxo-3,4-dihydrobenzo[g]pteridin- 10(2H)-yl)-2,3,4-trihydroxypentyl dihydrogen diphosphate
8-FORMYL-FLAVIN-ADENINE DINUCLEOTIDE (Synonym)
C27 H31 N9 O16 P2
WPPWMPSQWPJDHE-UYBVJOGSSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MPD
Query on MPD

C (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MRD
Query on MRD

A (4R)-2-METHYLPENTANE-2,4-DIOL
C6 H14 O2
SVTBMSDMJJWYQN-RXMQYKEDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PEG
Query on PEG

B DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.24 Å
  • R-Value Free: 0.236
  • R-Value Work: 0.184
  • Space Group: C 2 2 21

Unit Cell:

Length (Å) Angle (°)
a = 156.68 α = 90.00
b = 156.02 β = 90.00
c = 184.70 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2011-01-09
  • Released Date: 2011-09-21
  • Deposition author(s): Doubayashi, D., Ootake, T., Maeda, Y., Oki, M., Tokunaga, Y., Sakurai, A., Nagaosa, Y., Mikami, B., Uchida, H.

Revision History

  • Version 1_0: 2011-09-21

    Type: Initial release

  • Version 1_1: 2013-06-26

    Type: Database references

  • Version 1_2: 2017-11-08

    Type: Advisory, Refinement description