4WFO

manganese-substituted soybean lipoxygenase-1

• PDB DOI: https://doi.org/10.2210/pdb4WFO/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Glycine max
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2014-09-16 Released: 2015-09-30 
• Deposition Author(s): Carr, C.A.M., Scouras, A.D., Klinman, J.P.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Science Foundation (NSF, United States)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.14 Å
• R-Value Free: 0.128 
• R-Value Work: 0.108 
• R-Value Observed: 0.108 

Literature

Direct detection of active-site geometries in soybean lipoxygenase-1 by ENDOR

Carr, C.A.M., Horitani, M., Offenbacher, A.R., Knitz, M.W., Klinman, J.P., Hoffman, B.M.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 97.69 kDa 
• Atom Count: 8,374 
• Modelled Residue Count: 826 
• Deposited Residue Count: 858 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Seed linoleate 13S-lipoxygenase-1	A	858	Glycine max	Mutation(s): 1  Gene Names: LOX1.1, LOX1 EC: 1.13.11.12
UniProt
Find proteins for P08170 (Glycine max) Explore P08170  Go to UniProtKB:  P08170

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
ACT	K [auth A], L [auth A], M [auth A], N [auth A], O [auth A], P [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
MN	B [auth A]	MANGANESE (II) ION Mn WAEMQWOKJMHJLA-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.14 Å
• R-Value Free: 0.128 
• R-Value Work: 0.108 
• R-Value Observed: 0.108 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.123	α = 90
b = 91.497	β = 93.88
c = 90.897	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2015-09-30 
Deposition Author(s): Carr, C.A.M., Scouras, A.D., Klinman, J.P.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM025765
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	T32 GM008295
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	P50GM082250
National Science Foundation (NSF, United States)	United States	CHE-0840505

Revision History  

• Version 1.0: 2015-09-30
  Type: Initial release
  
• Version 1.1: 2017-09-27
  Changes: Author supporting evidence, Derived calculations
• Version 1.2: 2019-11-27
  Changes: Author supporting evidence
• Version 1.3: 2023-09-27
  Changes: Data collection, Database references, Refinement description