8WHC

Durio zibethinus trypsin inhibitor DzTI-9

• PDB DOI: https://doi.org/10.2210/pdb8WHC/pdb

• Classification: PLANT PROTEIN
• Organism(s): Durio zibethinus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-09-23 Released: 2024-09-25 
• Deposition Author(s): Deentanya, P., Wangkanont, K.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.220 
• R-Value Work: 0.179 
• R-Value Observed: 0.181 

Starting Model: experimental

Literature

Durio zibethinus trypsin inhibitor DzTI-9

Deentanya, P., Wangkanont, K.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 4-mer - A4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: homology

Macromolecule Content

• Total Structure Weight: 87.92 kDa 
• Atom Count: 6,640 
• Modelled Residue Count: 737 
• Deposited Residue Count: 776 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
21 kDa seed protein-like	A, B, C, D	194	Durio zibethinus	Mutation(s): 0  Gene Names: LOC111287814
UniProt
Find proteins for A0A6P5Y2I1 (Durio zibethinus) Explore A0A6P5Y2I1  Go to UniProtKB:  A0A6P5Y2I1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	E [auth A], F [auth A], G [auth A], H [auth A], I [auth A], J [auth A], M [auth C], O [auth C], P [auth C], R [auth C]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ACT	K [auth B], L [auth B], N [auth C], Q [auth C], S [auth D]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.220 
• R-Value Work: 0.179 
• R-Value Observed: 0.181 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.305	α = 90
b = 70.413	β = 90
c = 203.592	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-09-25 
Deposition Author(s): Deentanya, P., Wangkanont, K.

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Funding Organization	Location	Grant Number
Other government	Thailand	National Research Council of Thailand (NRCT), N42A650270
Other government	Thailand	Chulalongkorn University, RES_65_389_23_039
Other government	Thailand	Chulalongkorn University, CU_GR_62_28_23_10

Revision History  

• Version 1.0: 2024-09-25
  Type: Initial release