Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Cyclic - C4  (3D View)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 5440.38 
• Atom Count: 369 
• Residue Count: 45 
• Unique protein chains: 1

2PLH

STRUCTURE OF ALPHA-1-PUROTHIONIN AT ROOM TEMPERATURE AND 2.8 ANGSTROMS RESOLUTION

• DOI: 10.2210/pdb2PLH/pdb

• Classification: TOXIN
• Organism(s): Triticum aestivum


• Deposited: 1993-07-09 Released: 1996-04-03 
• Deposition Author(s): Teeter, M.M., Stec, B., Rao, U.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å

Literature

Refinement of purothionins reveals solute particles important for lattice formation and toxicity. Part 1: alpha1-purothionin revisited.

Rao, U., Stec, B., Teeter, M.M.

(1995) Acta Crystallogr.,Sect.D 51: 904-913

• PubMed: 15299760 
• DOI: 10.1107/S0907444995002964


• PubMed Abstract: 
  

The three-dimensional structure of alpha(1)-purothionin (alpha(1)-PT), a wheat-germ protein and a basic lytic toxin, was previously solved by molecular-replacement methods using an energy-minimized predicted model and refined to an R-factor of 21.6% [Teeter, Ma, Rao & Whitlow (1990). Proteins Struct. Funct. Genet. 8, 118-1321. Some deficiencies of the model motivated us to revisit the structure and to continue the refinement. Here we report a significantly improved structure refined to an R-factor of 15.5% with excellent geometry. The refinement of this relatively low resolution structure ( approximately 2.8 A) is well suited to test the limitations of classical methods of refinement and to address the problem of overfitting, The final structure contains 434 atoms including 330 protein atoms, 70 waters, three acetates, two glycerols, one sec-butanol and one phosphate. The key solute molecules (acetate ion and phosphate ion) play a crucial role in the lattice formation. Phosphate and glycerol found in the structure may be important for biological activity of the toxins.

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Related Citations: 

• Crystal Structure of a Protein-Toxin Alpha1-Purothionin at 2.5 Angstroms and a Comparison with Predicted Models
  Teeter, M.M.,Ma, X.-Q.,Rao, U.,Whitlow, M.
  (1990) Proteins 8: 118




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Organizational Affiliation: 

Department of Chemistry, Boston College, Chestnut Hill, MA 02167, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
ALPHA-1-PUROTHIONIN	A	45	Triticum aestivum	Mutation(s): 0  Gene Names: THI1.1 (PUR-D1)
Find proteins for P01544 (Triticum aestivum) Go to UniProtKB:  P01544

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SBT	A	2-BUTANOL C4 H10 O BTANRVKWQNVYAZ-BYPYZUCNSA-N
PO4	A	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K
ACT	A	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
GOL	A	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.5 Å
• Space Group: I 4 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 53.590	α = 90.00
b = 53.590	β = 90.00
c = 69.790	γ = 90.00

Software Package:

Software Name	Purpose
DTP	data collection
DTP	data reduction
PROLSQ	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1993-07-09 
• Released Date: 1996-04-03 
• Deposition Author(s): Teeter, M.M., Stec, B., Rao, U.

Revision History 

• Version 1.0: 1996-04-03
  Type: Initial release
• Version 1.1: 2008-03-03
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Non-polymer description, Version format compliance
• Version 1.3: 2017-11-29
  Type: Derived calculations, Other