1DNL

X-RAY STRUCTURE OF ESCHERICHIA COLI PYRIDOXINE 5'-PHOSPHATE OXIDASE COMPLEXED WITH FMN AT 1.8 ANGSTROM RESOLUTION


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.210

Literature

Macromolecules
Sequence Display for 1DNL

Classification: OXIDOREDUCTASE

Total Structure Weight: 23990.50

Macromolecule Entities
Molecule Chains Length Organism Details
PYRIDOXINE 5'-PHOSPHATE OXIDASE A 199 Escherichia coli EC#: 1.4.3.5 IUBMB
Mutation: M53M, M79M, M113M, M127M
Gene Name(s): pdxH b1638 JW1630
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A FLAVIN MONONUCLEOTIDE
RIBOFLAVIN MONOPHOSPHATE (Synonym)
C17 H21 N4 O9 P
FVTCRASFADXXNN-SCRDCRAPSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.233
  • R-Value Work: 0.210
  • Space Group: P 31 2 1

Unit Cell:

Length (Å) Angle (°)
a = 63.71 α = 90.00
b = 63.71 β = 90.00
c = 125.25 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-12-16
  • Released Date: 2000-01-05
  • Deposition author(s): Safo, M.K., Mathews, I., Musayev, F.N., di Salvo, M.L., Thiel, D.J., Abraham, D.J., Schirch, V.

Revision History

  • 2008-04-27
    Type: Version format compliance
  • 2011-07-13
    Type: Derived calculations, Version format compliance