5GTF

Crystal structure of onion lachrymatory factor synthase (LFS) containing glycerol


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.170

Literature

Macromolecules
Sequence Display for 5GTF

Classification: ISOMERASE

Total Structure Weight: 81034.63

Macromolecule Entities
Molecule Chains Length Organism Details
Lachrymatory-factor synthase A, B, C, D 175 Allium cepa EC#: 5.3 IUBMB
Gene Name(s): LFS
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

D 2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B, C SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

A, B, C, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.199
  • R-Value Work: 0.170
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 65.00 α = 90.00
b = 119.93 β = 90.00
c = 125.60 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2016-08-20
  • Released Date: 2017-08-23
  • Deposition author(s): Takabe, J., Arakawa, T., Masamura, N., Tsuge, N., Imai, S., Fushinobu, S.

Revision History

  • Version 1_0: 2017-08-23

    Type: Initial release