1IK3

LIPOXYGENASE-3 (SOYBEAN) COMPLEX WITH 13(S)-HYDROPEROXY-9(Z),11(E)-OCTADECADIENOIC ACID

Structural Biology Knowledgebase: 1IK3 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.296
  • R-Value Work: 0.196

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1IK3

Classification: OXIDOREDUCTASE

Total Structure Weight: 98225.48

Macromolecule Entities
Molecule Chains Length Organism Details
LIPOXYGENASE-3 A 857 Glycine max EC#: 1.13.11.58 IUBMB
Gene Name(s): LOX1.3 LOX3

Membrane Protein

Source: inferred by homology | Group: MONOTOPIC MEMBRANE PROTEINS

Subgroup Name: Lipoxygenases

Protein Name: Lipoxygenase-L3 from soybeans


Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
11O
Query on 11O

A (TRANS-12,13-EPOXY)-11-HYDROXY-9(Z)-OCTADECENOIC ACID
C18 H32 O4
UZCLYICSWADYGM-RXWDXHPSSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
13R
Query on 13R

A 13(R)-HYDROPEROXY-9(Z),11(E)-OCTADECADIENOIC ACID
C18 H32 O4
JDSRHVWSAMTSSN-PIHGWCCBSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
13S
Query on 13S

A 13(S)-HYDROPEROXY-9(Z),11(E)-OCTADECADIENOIC ACID
C18 H32 O4
JDSRHVWSAMTSSN-IRQZEAMPSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
9OH
Query on 9OH

A (TRANS-12,13-EPOXY)-9-HYDROXY-10(E)-OCTADECENOIC ACID
C18 H32 O4
WCCLYKMJXGYGEN-WFZKJPOOSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FE
Query on FE

A FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.296
  • R-Value Work: 0.196
  • Space Group: C 1 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 112.65 α = 90.00
b = 137.28 β = 95.56
c = 61.89 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2001-05-01
  • Released Date: 2001-11-14
  • Deposition author(s): Skrzypczak-Jankun, E., Funk Jr., M.O.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4