2YEO | pdb_00002yeo

A39L mutation of scorpion toxin lqh-alpha-it

• PDB DOI: https://doi.org/10.2210/pdb2YEO/pdb

• Classification: TOXIN
• Organism(s): Leiurus hebraeus
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 
• Membrane Protein: Yes  OPM


• Deposited: 2011-03-28 Released: 2011-04-13 
• Deposition Author(s): Frolow, F., Kahn, R., Gurevitz, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.08 Å
• R-Value Free: 
  0.123 (Depositor), 0.127 (DCC) 
• R-Value Work: 
  0.120 (Depositor), 0.122 (DCC) 
• R-Value Observed: 
  0.120 (Depositor) 

Starting Model: experimental

Literature

Crystal Structures of Scorpion Alpha-Toxinsmutants Reveal Conformational Constraints that Dictate Preference for Mammalian Brain Voltage-Gated Na- Channels

Frolow, F., Kahn, R., Gurevitz, M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 8.1 kDa 
• Atom Count: 710 
• Modeled Residue Count: 65 
• Deposited Residue Count: 65 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ALPHA-INSECT TOXIN LQHAIT	A	65	Leiurus hebraeus	Mutation(s): 1  Membrane Entity: Yes
UniProt
Find proteins for P17728 (Leiurus hebraeus) Explore P17728  Go to UniProtKB:  P17728

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DR0	C [auth A]	N-(HYDROXYMETHYL)-N,N-DIMETHYLHEXAN-1-AMINIUM C9 H22 N O HSCKPPPLTPBXED-UHFFFAOYSA-N
DR8	B [auth A]	N,N,N-TRIMETHYLHEPTA-1,3,5-TRIYN-1-AMINIUM C10 H12 N AKYJILYZPCHMQA-UHFFFAOYSA-N
EDO	D [auth A], E [auth A], H [auth A], J [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL	F [auth A], G [auth A], I [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.08 Å
• R-Value Free:  0.123 (Depositor), 0.127 (DCC) 
• R-Value Work:  0.120 (Depositor), 0.122 (DCC) 
• R-Value Observed: 0.120 (Depositor) 

Space Group: F 4 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 129.707	α = 90
b = 129.707	β = 90
c = 129.707	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
DENZO	data reduction
HKL-2000	data scaling
SCALEPACK	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-04-13 
Deposition Author(s): Frolow, F., Kahn, R., Gurevitz, M.

Revision History  

• Version 1.0: 2011-04-13
  Type: Initial release
  
• Version 1.1: 2011-05-12
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description
• Version 1.4: 2024-11-13
  Changes: Structure summary